./READ.me: OK
./LY_Chip-seq/iHEP_IgG_S8_L001_R1_001.fastq.gz: OK
./LY_Chip-seq/H1ESC_C-Rad21_S2_L001_R1_001.fastq.gz: OK
./LY_Chip-seq/H1ESC_input_post_sonicate_S9_L001_R2_001.fastq.gz: OK
./LY_Chip-seq/H1ESC_C-Rad21_S2_L001_R2_001.fastq.gz: OK
./LY_Chip-seq/H1ESC_input_post_sonicate_S9_L001_R1_001.fastq.gz: OK
./LY_Chip-seq/iHEP_IgG_S8_L001_R2_001.fastq.gz: OK
./LY_Chip-seq/iHEP_input_post_sonicate_S10_L001_R2_001.fastq.gz: OK
./LY_Chip-seq/iHEP_input_post_sonicate_S10_L001_R1_001.fastq.gz: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_report.html: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_per_base_n_content_plot-1.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot-1_Observed_over_Expected_Counts-log.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc-status-check-heatmap-1.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard_base_distribution_by_cycle__Cytosine.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools_alignment_plot-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard-1_quality_by_cycle.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-xy-plot-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/deeptools_fingerprint_plot.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard-1_alignment_summary_Aligned_Reads-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/cutadapt_trimmed_sequences_plot_3_Counts.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools_alignment_plot-2-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard_base_distribution_by_cycle__Adenine.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot-1_Raw_Counts-log.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools_alignment_plot-1-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard-1_alignment_summary_Aligned_Bases-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_overrepresented_sequences_plot-1.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot_Normalised_Counts-log.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard_base_distribution_by_cycle__Guanine.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_top_overrepresented_sequences_table-1.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_adapter_content_plot.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/strand_shift_correlation-plot.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/peak_annotation-plot-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-flagstat-dp_Read_counts.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot-2_Observed_over_Expected_Counts-log.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/nsc_coefficient-plot-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard_deduplication-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_top_overrepresented_sequences_table.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/peak_count-plot-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot-1_Observed_over_Expected_Counts-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_sequence_length_distribution_plot-1.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/cutadapt_filtered_reads_plot-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc-status-check-heatmap.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-stats-dp-2.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_per_sequence_quality_scores_plot-1.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard_base_distribution_by_cycle__Undetermined.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_sequence_counts_plot-1-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot-1_Raw_Counts-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_sequence_counts_plot-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/featureCounts_assignment_plot-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_per_sequence_gc_content_plot-1_Counts.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot_Normalised_Counts-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_per_base_n_content_plot.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard-1_quality_score_distribution.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-stats-dp.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot-2_Observed_over_Expected_Counts-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-xy-plot-2-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-xy-plot-1-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/frip_score-plot-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/rsc_coefficient-plot-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot-2_Normalised_Counts-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard-1_alignment_summary_Aligned_Bases-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-flagstat-dp-2_Percentage_of_total.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot_Raw_Counts-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/cutadapt_trimmed_sequences_plot_3_Obs_Exp.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/peak_annotation-plot-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_overrepresented_sequences_plot.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_per_sequence_gc_content_plot_Counts.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot-1_Normalised_Counts-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot_Observed_over_Expected_Counts-log.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-flagstat-dp-1_Read_counts.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard_deduplication-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_per_sequence_gc_content_plot-1_Percentages.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/nsc_coefficient-plot-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_sequence_length_distribution_plot.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools_alignment_plot-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-stats-dp-1.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard_base_distribution_by_cycle__Thymine.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard-1_alignment_summary_Aligned_Reads-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot-2_Raw_Counts-log.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-xy-plot-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools_alignment_plot-2-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_per_sequence_quality_scores_plot.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_per_base_sequence_quality_plot.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_per_sequence_gc_content_plot_Percentages.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools_alignment_plot-1-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-flagstat-dp_Percentage_of_total.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/featureCounts_assignment_plot-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/read_distribution_profile.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot-2_Normalised_Counts-log.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot_Raw_Counts-log.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_sequence_duplication_levels_plot.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-xy-plot-2-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot-1_Normalised_Counts-log.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot_Observed_over_Expected_Counts-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-xy-plot-1-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/rsc_coefficient-plot-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/frip_score-plot-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard-1_insert_size_Percentages.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/cutadapt_filtered_reads_plot-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/peak_count-plot-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-flagstat-dp-1_Percentage_of_total.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard-1_insert_size_Counts.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_per_base_sequence_quality_plot-1.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-flagstat-dp-2_Read_counts.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/samtools-idxstats-mapped-reads-plot-2_Raw_Counts-cnt.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_sequence_duplication_levels_plot-1.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/picard-1_alignment_readlength_plot.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_sequence_counts_plot-1-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/preseq_complexity_plot_molecules.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/png/fastqc_sequence_counts_plot-pct.png: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard_deduplication-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/nsc_coefficient-plot-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard_base_distribution_by_cycle__Thymine.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_per_base_n_content_plot.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/peak_annotation-plot-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot-2_Raw_Counts-log.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-flagstat-dp_Percentage_of_total.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard-1_alignment_summary_Aligned_Bases-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard_base_distribution_by_cycle__Cytosine.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot_Raw_Counts-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard-1_alignment_summary_Aligned_Reads-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools_alignment_plot-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-flagstat-dp-2_Percentage_of_total.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools_alignment_plot-1-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot_Observed_over_Expected_Counts-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_sequence_duplication_levels_plot-1.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-xy-plot-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_per_sequence_gc_content_plot_Counts.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools_alignment_plot-2-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_per_sequence_gc_content_plot_Percentages.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-flagstat-dp-1_Percentage_of_total.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/rsc_coefficient-plot-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_sequence_counts_plot-1-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard-1_insert_size_Percentages.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/cutadapt_trimmed_sequences_plot_3_Obs_Exp.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-xy-plot-2-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-xy-plot-1-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot-2_Raw_Counts-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/peak_count-plot-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_overrepresented_sequences_plot-1.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-stats-dp-2.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot_Raw_Counts-log.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/preseq_complexity_plot_molecules.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/read_distribution_profile.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/frip_score-plot-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_sequence_counts_plot-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard-1_insert_size_Counts.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot_Observed_over_Expected_Counts-log.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_sequence_length_distribution_plot.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_per_sequence_gc_content_plot-1_Percentages.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/featureCounts_assignment_plot-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/cutadapt_filtered_reads_plot-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard-1_quality_score_distribution.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard-1_alignment_summary_Aligned_Reads-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard_base_distribution_by_cycle__Guanine.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools_alignment_plot-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc-status-check-heatmap-1.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools_alignment_plot-1-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot-2_Observed_over_Expected_Counts-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-xy-plot-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_per_base_sequence_quality_plot-1.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_per_base_n_content_plot-1.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools_alignment_plot-2-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_per_sequence_quality_scores_plot-1.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/nsc_coefficient-plot-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard_deduplication-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_sequence_duplication_levels_plot.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard-1_alignment_readlength_plot.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-flagstat-dp_Read_counts.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot-1_Normalised_Counts-log.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot-1_Observed_over_Expected_Counts-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard-1_quality_by_cycle.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/peak_annotation-plot-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard_base_distribution_by_cycle__Adenine.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_adapter_content_plot.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-flagstat-dp-2_Read_counts.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-stats-dp.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard-1_alignment_summary_Aligned_Bases-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_top_overrepresented_sequences_table-1.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/strand_shift_correlation-plot.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot-1_Raw_Counts-log.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-stats-dp-1.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot_Normalised_Counts-log.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot-2_Normalised_Counts-log.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc-status-check-heatmap.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/cutadapt_trimmed_sequences_plot_3_Counts.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-flagstat-dp-1_Read_counts.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_per_sequence_quality_scores_plot.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/frip_score-plot-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_sequence_counts_plot-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot-2_Observed_over_Expected_Counts-log.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/featureCounts_assignment_plot-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/cutadapt_filtered_reads_plot-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/picard_base_distribution_by_cycle__Undetermined.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_per_base_sequence_quality_plot.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_sequence_counts_plot-1-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/rsc_coefficient-plot-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-xy-plot-2-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/deeptools_fingerprint_plot.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_top_overrepresented_sequences_table.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot-1_Normalised_Counts-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-xy-plot-1-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot-1_Observed_over_Expected_Counts-log.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_sequence_length_distribution_plot-1.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_per_sequence_gc_content_plot-1_Counts.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/peak_count-plot-pct.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/fastqc_overrepresented_sequences_plot.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot-1_Raw_Counts-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot-2_Normalised_Counts-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/pdf/samtools-idxstats-mapped-reads-plot_Normalised_Counts-cnt.pdf: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/peak_count-plot-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-xy-plot-2-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-xy-plot-1-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-flagstat-dp-2_Percentage_of_total.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc-status-check-heatmap.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot-2_Raw_Counts-log.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_per_sequence_gc_content_plot_Counts.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/rsc_coefficient-plot-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools_alignment_plot-2-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot_Observed_over_Expected_Counts-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_per_sequence_gc_content_plot-1_Counts.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-xy-plot-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard_base_distribution_by_cycle__Thymine.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard_base_distribution_by_cycle__Cytosine.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools_alignment_plot-1-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_sequence_counts_plot-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_per_sequence_quality_scores_plot.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot-2_Normalised_Counts-log.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot_Normalised_Counts-log.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot_Raw_Counts-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/frip_score-plot-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot-1_Normalised_Counts-log.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard-1_quality_by_cycle.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools_alignment_plot-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_sequence_duplication_levels_plot.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/cutadapt_filtered_reads_plot-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-stats-dp-1.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-stats-dp.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/peak_annotation-plot-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard-1_alignment_summary_Aligned_Reads-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/preseq_complexity_plot_molecules.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/cutadapt_trimmed_sequences_plot_3_Counts.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot-2_Raw_Counts-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/featureCounts_assignment_plot-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard_deduplication-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/nsc_coefficient-plot-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-flagstat-dp-1_Percentage_of_total.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard-1_alignment_summary_Aligned_Bases-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot_Observed_over_Expected_Counts-log.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_sequence_counts_plot-1-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_top_overrepresented_sequences_table-1.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot-2_Normalised_Counts-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard-1_insert_size_Percentages.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot_Normalised_Counts-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_per_sequence_quality_scores_plot-1.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_per_base_sequence_quality_plot-1.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_per_sequence_gc_content_plot_Percentages.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot_Raw_Counts-log.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_adapter_content_plot.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot-1_Normalised_Counts-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools_alignment_plot-2-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_per_base_n_content_plot.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-flagstat-dp_Percentage_of_total.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard-1_quality_score_distribution.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-xy-plot-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot-1_Observed_over_Expected_Counts-log.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_sequence_counts_plot-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools_alignment_plot-1-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard_base_distribution_by_cycle__Adenine.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc-status-check-heatmap-1.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard_base_distribution_by_cycle__Undetermined.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/frip_score-plot-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-flagstat-dp_Read_counts.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/peak_count-plot-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard-1_insert_size_Counts.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard_base_distribution_by_cycle__Guanine.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-xy-plot-2-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/strand_shift_correlation-plot.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-xy-plot-1-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-stats-dp-2.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_per_base_n_content_plot-1.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/cutadapt_trimmed_sequences_plot_3_Obs_Exp.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot-1_Raw_Counts-log.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot-2_Observed_over_Expected_Counts-log.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-flagstat-dp-1_Read_counts.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_overrepresented_sequences_plot-1.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/rsc_coefficient-plot-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard-1_alignment_summary_Aligned_Bases-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_sequence_counts_plot-1-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot-1_Observed_over_Expected_Counts-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_top_overrepresented_sequences_table.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_per_base_sequence_quality_plot.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_sequence_length_distribution_plot-1.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-flagstat-dp-2_Read_counts.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard-1_alignment_readlength_plot.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_sequence_duplication_levels_plot-1.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools_alignment_plot-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/deeptools_fingerprint_plot.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_sequence_length_distribution_plot.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/cutadapt_filtered_reads_plot-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_overrepresented_sequences_plot.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot-1_Raw_Counts-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/read_distribution_profile.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/peak_annotation-plot-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard-1_alignment_summary_Aligned_Reads-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/samtools-idxstats-mapped-reads-plot-2_Observed_over_Expected_Counts-cnt.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/fastqc_per_sequence_gc_content_plot-1_Percentages.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/nsc_coefficient-plot-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/featureCounts_assignment_plot-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_plots/svg/picard_deduplication-pct.svg: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_per_sequence_gc_content_plot-1_Counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_top_overrepresented_sequences_table.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_top_overrepresented_sequences_table-1.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_overrepresented_sequences_plot-1.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/deeptools_fingerprint_plot.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_per_base_n_content_plot-1.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/picard_base_distribution_by_cycle__Thymine.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/multiqc_sources.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_per_base_sequence_quality_plot-1.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/picard-1_insert_size_Percentages.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_per_sequence_quality_scores_plot-1.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_per_sequence_quality_scores_plot.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_sequence_length_distribution_plot.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-idxstats-mapped-reads-plot-2_Observed_over_Expected_Counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools_alignment_plot-2.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-stats-dp.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/cutadapt_trimmed_sequences_plot_3_Obs_Exp.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/cutadapt_filtered_reads_plot.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_sequence_length_distribution_plot-1.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/picard_deduplication.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/picard-1_alignment_summary_Aligned_Bases.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/preseq_complexity_plot_molecules.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/picard_base_distribution_by_cycle__Cytosine.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-idxstats-mapped-reads-plot_Observed_over_Expected_Counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/multiqc.log: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-stats-dp-2.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-idxstats-xy-plot-1.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_adapter_content_plot.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-idxstats-mapped-reads-plot-1_Observed_over_Expected_Counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc-status-check-heatmap-1.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/picard_base_distribution_by_cycle__Undetermined.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_per_base_sequence_quality_plot.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/picard_base_distribution_by_cycle__Guanine.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-idxstats-mapped-reads-plot_Raw_Counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/picard-1_insert_size_Counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools_alignment_plot-1.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/picard-1_quality_score_distribution.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-flagstat-dp_Read_counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/read_distribution_profile.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc-status-check-heatmap.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_per_sequence_gc_content_plot_Counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-flagstat-dp-2_Read_counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-idxstats-mapped-reads-plot-1_Raw_Counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/picard-1_alignment_summary_Aligned_Reads.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_per_base_n_content_plot.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-flagstat-dp-1_Read_counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/multiqc_citations.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/cutadapt_trimmed_sequences_plot_3_Counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-flagstat-dp-1_Percentage_of_total.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/featureCounts_assignment_plot.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-idxstats-mapped-reads-plot-2_Normalised_Counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_sequence_duplication_levels_plot.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-idxstats-xy-plot.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/picard-1_quality_by_cycle.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-flagstat-dp-2_Percentage_of_total.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools_alignment_plot.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-stats-dp-1.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-idxstats-mapped-reads-plot_Normalised_Counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-flagstat-dp_Percentage_of_total.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-idxstats-xy-plot-2.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/multiqc_data.json: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_sequence_counts_plot-1.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_sequence_counts_plot.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-idxstats-mapped-reads-plot-2_Raw_Counts.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_per_sequence_gc_content_plot-1_Percentages.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/picard-1_alignment_readlength_plot.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/picard_base_distribution_by_cycle__Adenine.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_overrepresented_sequences_plot.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_per_sequence_gc_content_plot_Percentages.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/fastqc_sequence_duplication_levels_plot-1.yaml: OK
./LY_Chip-seq/results/multiqc/narrow_peak/multiqc_data/samtools-idxstats-mapped-reads-plot-1_Normalised_Counts.yaml: OK
./LY_Chip-seq/results/igv/narrow_peak/igv_session.xml: OK
./LY_Chip-seq/results/igv/narrow_peak/igv_files.txt: OK
./LY_Chip-seq/results/genome/genome.fa.fai: OK
./LY_Chip-seq/results/genome/genome.fa.sizes: OK
./LY_Chip-seq/results/genome/genome.fa: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_input_REP1.mLb.clN.computeMatrix.vals.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_input_REP1.mLb.clN.plotHeatmap.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_input_REP1.mLb.clN.computeMatrix.mat.gz: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_IgG_REP1.mLb.clN.computeMatrix.mat.gz: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_IgG_REP1.mLb.clN.computeMatrix.vals.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_input_REP1.mLb.clN.plotProfile.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_CTCF_REP1.mLb.clN.computeMatrix.mat.gz: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_C-Rad21_REP1.mLb.clN.computeMatrix.mat.gz: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_CTCF_REP1.mLb.clN.computeMatrix.mat.gz: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_C-Rad21_REP1.mLb.clN.plotHeatmap.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_input_REP1.mLb.clN.plotProfile.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_input_REP1.mLb.clN.computeMatrix.mat.gz: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_CTCF_REP1.mLb.clN.plotHeatmap.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_C-Rad21_REP1.mLb.clN.computeMatrix.vals.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_input_REP1.mLb.clN.plotHeatmap.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_CTCF_REP1.mLb.clN.plotProfile.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_C-Rad21_REP1.mLb.clN.computeMatrix.vals.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_input_REP1.mLb.clN.plotHeatmap.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_C-Rad21_REP1.mLb.clN.plotProfile.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_C-Rad21_REP1.mLb.clN.plotProfile.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_CTCF_REP1.mLb.clN.computeMatrix.vals.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_input_REP1.mLb.clN.plotHeatmap.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_CTCF_REP1.mLb.clN.plotProfile.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_C-Rad21_REP1.mLb.clN.plotProfile.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_C-Rad21_REP1.mLb.clN.plotProfile.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_C-Rad21_REP1.mLb.clN.plotHeatmap.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_C-Rad21_REP1.mLb.clN.plotHeatmap.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_input_REP1.mLb.clN.plotProfile.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_IgG_REP1.mLb.clN.plotHeatmap.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_CTCF_REP1.mLb.clN.plotHeatmap.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_IgG_REP1.mLb.clN.plotHeatmap.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_input_REP1.mLb.clN.plotProfile.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_input_REP1.mLb.clN.computeMatrix.vals.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_CTCF_REP1.mLb.clN.plotHeatmap.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_CTCF_REP1.mLb.clN.plotProfile.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_C-Rad21_REP1.mLb.clN.computeMatrix.mat.gz: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_IgG_REP1.mLb.clN.plotProfile.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_CTCF_REP1.mLb.clN.plotProfile.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_IgG_REP1.mLb.clN.plotHeatmap.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_IgG_REP1.mLb.clN.plotProfile.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_IgG_REP1.mLb.clN.plotProfile.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_IgG_REP1.mLb.clN.plotHeatmap.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_C-Rad21_REP1.mLb.clN.plotHeatmap.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_IgG_REP1.mLb.clN.computeMatrix.vals.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_IgG_REP1.mLb.clN.computeMatrix.mat.gz: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_CTCF_REP1.mLb.clN.computeMatrix.vals.mat.tab: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/H1ESC_CTCF_REP1.mLb.clN.plotHeatmap.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotProfile/iHEP_IgG_REP1.mLb.clN.plotProfile.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/H1ESC_CTCF_REP1.mLb.clN.plotFingerprint.qcmetrics.txt: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/H1ESC_C-Rad21_REP1.mLb.clN.plotFingerprint.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/iHEP_IgG_REP1.mLb.clN.plotFingerprint.qcmetrics.txt: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/iHEP_CTCF_REP1.mLb.clN.plotFingerprint.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/H1ESC_CTCF_REP1.mLb.clN.plotFingerprint.raw.txt: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/iHEP_CTCF_REP1.mLb.clN.plotFingerprint.qcmetrics.txt: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/H1ESC_IgG_REP1.mLb.clN.plotFingerprint.raw.txt: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/iHEP_C-Rad21_REP1.mLb.clN.plotFingerprint.raw.txt: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/H1ESC_C-Rad21_REP1.mLb.clN.plotFingerprint.raw.txt: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/H1ESC_CTCF_REP1.mLb.clN.plotFingerprint.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/H1ESC_IgG_REP1.mLb.clN.plotFingerprint.qcmetrics.txt: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/iHEP_IgG_REP1.mLb.clN.plotFingerprint.raw.txt: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/H1ESC_C-Rad21_REP1.mLb.clN.plotFingerprint.qcmetrics.txt: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/iHEP_C-Rad21_REP1.mLb.clN.plotFingerprint.qcmetrics.txt: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/H1ESC_IgG_REP1.mLb.clN.plotFingerprint.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/iHEP_CTCF_REP1.mLb.clN.plotFingerprint.raw.txt: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/iHEP_C-Rad21_REP1.mLb.clN.plotFingerprint.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/deepTools/plotFingerprint/iHEP_IgG_REP1.mLb.clN.plotFingerprint.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/iHEP_CTCF_REP1.mLb.clN.sorted.bam: OK
./LY_Chip-seq/results/bwa/merged_library/H1ESC_input_REP1.mLb.clN.sorted.bam: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.alignment_summary_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.read_length_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.read_length_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.read_length_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.read_length_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.read_length_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.read_length_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.read_length_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.read_length_histogram.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/iHEP_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/pdf/H1ESC_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.alignment_summary_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.alignment_summary_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.alignment_summary_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_CTCF_REP1.mLb.mkD.sorted.MarkDuplicates.metrics.txt: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.alignment_summary_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.alignment_summary_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_CTCF_REP1.mLb.mkD.sorted.MarkDuplicates.metrics.txt: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_input_REP1.mLb.mkD.sorted.MarkDuplicates.metrics.txt: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_IgG_REP1.mLb.mkD.sorted.MarkDuplicates.metrics.txt: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_IgG_REP1.mLb.mkD.sorted.MarkDuplicates.metrics.txt: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.alignment_summary_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_C-Rad21_REP1.mLb.mkD.sorted.MarkDuplicates.metrics.txt: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.base_distribution_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_C-Rad21_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.insert_size_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_by_cycle_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_input_REP1.mLb.mkD.sorted.MarkDuplicates.metrics.txt: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_C-Rad21_REP1.mLb.mkD.sorted.MarkDuplicates.metrics.txt: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_CTCF_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/H1ESC_IgG_REP1.mLb.clN.sorted.CollectMultipleMetrics.alignment_summary_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/picard_metrics/iHEP_input_REP1.mLb.clN.sorted.CollectMultipleMetrics.quality_distribution_metrics: OK
./LY_Chip-seq/results/bwa/merged_library/H1ESC_C-Rad21_REP1.mLb.clN.sorted.bam: OK
./LY_Chip-seq/results/bwa/merged_library/iHEP_C-Rad21_REP1.mLb.clN.sorted.bam: OK
./LY_Chip-seq/results/bwa/merged_library/H1ESC_IgG_REP1.mLb.clN.sorted.bam: OK
./LY_Chip-seq/results/bwa/merged_library/iHEP_input_REP1.mLb.clN.sorted.bam: OK
./LY_Chip-seq/results/bwa/merged_library/iHEP_CTCF_REP1.mLb.clN.sorted.bam.bai: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/H1ESC_C-Rad21_REP1.mLb.clN.sorted.bam.stats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/H1ESC_input_REP1.mLb.clN.sorted.bam.idxstats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/H1ESC_C-Rad21_REP1.mLb.clN.sorted.bam.flagstat: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/H1ESC_input_REP1.mLb.clN.sorted.bam.stats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/H1ESC_input_REP1.mLb.clN.sorted.bam.flagstat: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/H1ESC_C-Rad21_REP1.mLb.clN.sorted.bam.idxstats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/iHEP_CTCF_REP1.mLb.clN.sorted.bam.flagstat: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/H1ESC_CTCF_REP1.mLb.clN.sorted.bam.stats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/iHEP_CTCF_REP1.mLb.clN.sorted.bam.stats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/iHEP_CTCF_REP1.mLb.clN.sorted.bam.idxstats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/iHEP_IgG_REP1.mLb.clN.sorted.bam.stats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/H1ESC_CTCF_REP1.mLb.clN.sorted.bam.flagstat: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/H1ESC_IgG_REP1.mLb.clN.sorted.bam.flagstat: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/iHEP_input_REP1.mLb.clN.sorted.bam.flagstat: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/H1ESC_IgG_REP1.mLb.clN.sorted.bam.idxstats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/iHEP_input_REP1.mLb.clN.sorted.bam.idxstats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/H1ESC_CTCF_REP1.mLb.clN.sorted.bam.idxstats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/iHEP_input_REP1.mLb.clN.sorted.bam.stats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/iHEP_IgG_REP1.mLb.clN.sorted.bam.flagstat: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/iHEP_C-Rad21_REP1.mLb.clN.sorted.bam.stats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/iHEP_C-Rad21_REP1.mLb.clN.sorted.bam.idxstats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/iHEP_IgG_REP1.mLb.clN.sorted.bam.idxstats: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/iHEP_C-Rad21_REP1.mLb.clN.sorted.bam.flagstat: OK
./LY_Chip-seq/results/bwa/merged_library/samtools_stats/H1ESC_IgG_REP1.mLb.clN.sorted.bam.stats: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/H1ESC_input_REP1.mLb.mkD.lc_extrap.txt: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/H1ESC_IgG_REP1.mLb.mkD.lc_extrap.txt: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/iHEP_input_REP1.mLb.mkD.lc_extrap.txt: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/iHEP_C-Rad21_REP1.mLb.mkD.command.log: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/H1ESC_C-Rad21_REP1.mLb.mkD.command.log: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/iHEP_CTCF_REP1.mLb.mkD.command.log: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/H1ESC_IgG_REP1.mLb.mkD.command.log: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/iHEP_IgG_REP1.mLb.mkD.command.log: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/iHEP_input_REP1.mLb.mkD.command.log: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/H1ESC_CTCF_REP1.mLb.mkD.command.log: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/H1ESC_CTCF_REP1.mLb.mkD.lc_extrap.txt: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/iHEP_CTCF_REP1.mLb.mkD.lc_extrap.txt: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/H1ESC_input_REP1.mLb.mkD.command.log: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/iHEP_C-Rad21_REP1.mLb.mkD.lc_extrap.txt: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/H1ESC_C-Rad21_REP1.mLb.mkD.lc_extrap.txt: OK
./LY_Chip-seq/results/bwa/merged_library/preseq/iHEP_IgG_REP1.mLb.mkD.lc_extrap.txt: OK
./LY_Chip-seq/results/bwa/merged_library/iHEP_input_REP1.mLb.clN.sorted.bam.bai: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/H1ESC_CTCF_REP1_peaks.narrowPeak: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/iHEP_CTCF_REP1_peaks.narrowPeak: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/H1ESC_CTCF_REP1_peaks.xls: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/iHEP_CTCF_REP1_peaks.annotatePeaks.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/H1ESC_IgG_REP1_peaks.narrowPeak: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/H1ESC_CTCF_REP1_summits.bed: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/H1ESC_C-Rad21_REP1_summits.bed: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/iHEP_C-Rad21_REP1_summits.bed: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/H1ESC_CTCF_REP1.FRiP_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/H1ESC_C-Rad21_REP1.peak_count_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/H1ESC_CTCF_REP1.peak_count_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/H1ESC_IgG_REP1.FRiP_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/H1ESC_IgG_REP1.peak_count_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/iHEP_IgG_REP1.FRiP_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/macs3_peak.plots.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/macs3_peak.summary.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/iHEP_IgG_REP1.peak_count_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/macs3_annotatePeaks.plots.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/iHEP_CTCF_REP1.peak_count_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/iHEP_CTCF_REP1.FRiP_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/H1ESC_C-Rad21_REP1.FRiP_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/macs3_annotatePeaks.summary_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/iHEP_C-Rad21_REP1.peak_count_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/iHEP_C-Rad21_REP1.FRiP_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/qc/macs3_annotatePeaks.summary.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/H1ESC_C-Rad21_REP1_peaks.annotatePeaks.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/iHEP_IgG_REP1_peaks.narrowPeak: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/iHEP_C-Rad21_REP1_peaks.annotatePeaks.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/iHEP_IgG_REP1_peaks.xls: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/iHEP_CTCF_REP1_summits.bed: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/H1ESC_IgG_REP1_peaks.annotatePeaks.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/iHEP_IgG_REP1_summits.bed: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/H1ESC_C-Rad21_REP1_peaks.xls: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/iHEP_IgG_REP1_peaks.annotatePeaks.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/C-Rad21/C-Rad21.consensus_peaks.saf: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/C-Rad21/C-Rad21.consensus_peaks.featureCounts.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/C-Rad21/C-Rad21.consensus_peaks.antibody.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/C-Rad21/C-Rad21.consensus_peaks.annotatePeaks.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/C-Rad21/C-Rad21.consensus_peaks.boolean.intersect.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/C-Rad21/C-Rad21.consensus_peaks.featureCounts.txt.summary: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/C-Rad21/C-Rad21.consensus_peaks.boolean.annotatePeaks.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/C-Rad21/C-Rad21.consensus_peaks.bed: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/C-Rad21/C-Rad21.consensus_peaks.boolean.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/C-Rad21/C-Rad21.consensus_peaks.boolean.intersect.plot.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/CTCF/CTCF.consensus_peaks.antibody.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/CTCF/CTCF.consensus_peaks.featureCounts.txt.summary: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/CTCF/CTCF.consensus_peaks.annotatePeaks.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/CTCF/CTCF.consensus_peaks.boolean.annotatePeaks.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/CTCF/CTCF.consensus_peaks.featureCounts.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/CTCF/CTCF.consensus_peaks.saf: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/CTCF/CTCF.consensus_peaks.bed: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/CTCF/CTCF.consensus_peaks.boolean.intersect.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/CTCF/CTCF.consensus_peaks.boolean.intersect.plot.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/CTCF/CTCF.consensus_peaks.boolean.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/IgG/IgG.consensus_peaks.boolean.intersect.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/IgG/IgG.consensus_peaks.featureCounts.txt.summary: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/IgG/IgG.consensus_peaks.saf: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/IgG/IgG.consensus_peaks.boolean.annotatePeaks.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/IgG/IgG.consensus_peaks.featureCounts.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/IgG/IgG.consensus_peaks.bed: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/IgG/IgG.consensus_peaks.antibody.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/IgG/IgG.consensus_peaks.boolean.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/IgG/IgG.consensus_peaks.boolean.intersect.plot.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/consensus/IgG/IgG.consensus_peaks.annotatePeaks.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/H1ESC_CTCF_REP1_peaks.annotatePeaks.txt: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/H1ESC_IgG_REP1_summits.bed: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/iHEP_CTCF_REP1_peaks.xls: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/iHEP_C-Rad21_REP1_peaks.xls: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/H1ESC_C-Rad21_REP1_peaks.narrowPeak: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/iHEP_C-Rad21_REP1_peaks.narrowPeak: OK
./LY_Chip-seq/results/bwa/merged_library/macs3/narrow_peak/H1ESC_IgG_REP1_peaks.xls: OK
./LY_Chip-seq/results/bwa/merged_library/H1ESC_input_REP1.mLb.clN.sorted.bam.bai: OK
./LY_Chip-seq/results/bwa/merged_library/H1ESC_C-Rad21_REP1.mLb.clN.sorted.bam.bai: OK
./LY_Chip-seq/results/bwa/merged_library/H1ESC_IgG_REP1.mLb.clN.sorted.bam.bai: OK
./LY_Chip-seq/results/bwa/merged_library/H1ESC_CTCF_REP1.mLb.clN.sorted.bam.bai: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_input_REP1.spp_correlation_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_C-Rad21_REP1.spp.out: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_input_REP1.spp_correlation_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_C-Rad21_REP1.spp_rsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_input_REP1.spp.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_input_REP1.spp_nsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_C-Rad21_REP1.spp_correlation_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_C-Rad21_REP1.spp.out: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_C-Rad21_REP1.spp_rsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_IgG_REP1.spp_correlation_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_IgG_REP1.spp_rsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_CTCF_REP1.spp.out: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_IgG_REP1.spp_nsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_input_REP1.spp.out: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_CTCF_REP1.spp_nsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_input_REP1.spp_nsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_IgG_REP1.spp.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_IgG_REP1.spp.out: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_CTCF_REP1.spp_nsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_CTCF_REP1.spp.out: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_CTCF_REP1.spp.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_IgG_REP1.spp.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_CTCF_REP1.spp_rsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_IgG_REP1.spp.out: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_CTCF_REP1.spp_rsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_input_REP1.spp_rsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_input_REP1.spp.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_IgG_REP1.spp_rsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_CTCF_REP1.spp_correlation_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_IgG_REP1.spp_nsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_CTCF_REP1.spp.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_IgG_REP1.spp_correlation_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_C-Rad21_REP1.spp_correlation_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_C-Rad21_REP1.spp_nsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_C-Rad21_REP1.spp.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_CTCF_REP1.spp_correlation_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_input_REP1.spp_rsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_C-Rad21_REP1.spp_nsc_mqc.tsv: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/iHEP_input_REP1.spp.out: OK
./LY_Chip-seq/results/bwa/merged_library/phantompeakqualtools/H1ESC_C-Rad21_REP1.spp.pdf: OK
./LY_Chip-seq/results/bwa/merged_library/iHEP_IgG_REP1.mLb.clN.sorted.bam.bai: OK
./LY_Chip-seq/results/bwa/merged_library/iHEP_C-Rad21_REP1.mLb.clN.sorted.bam.bai: OK
./LY_Chip-seq/results/bwa/merged_library/iHEP_IgG_REP1.mLb.clN.sorted.bam: OK
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./LY_Chip-seq/results/fastqc/iHEP_C-Rad21_REP1_T1_1_fastqc.html: OK
./LY_Chip-seq/results/fastqc/H1ESC_C-Rad21_REP1_T1_1_fastqc.html: OK
./LY_Chip-seq/results/fastqc/iHEP_IgG_REP1_T1_2_fastqc.html: OK
./LY_Chip-seq/results/fastqc/iHEP_CTCF_REP1_T1_2_fastqc.html: OK
./LY_Chip-seq/results/fastqc/H1ESC_IgG_REP1_T1_2_fastqc.html: OK
./LY_Chip-seq/results/fastqc/iHEP_input_REP1_T1_1_fastqc.html: OK
./LY_Chip-seq/results/fastqc/H1ESC_input_REP1_T1_2_fastqc.html: OK
./LY_Chip-seq/results/fastqc/H1ESC_CTCF_REP1_T1_2_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/H1ESC_C-Rad21_REP1_T1_2_val_2_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/iHEP_IgG_REP1_T1_1_val_1_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/H1ESC_C-Rad21_REP1_T1_1_val_1_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/iHEP_IgG_REP1_T1_2_val_2_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/iHEP_CTCF_REP1_T1_2_val_2_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/iHEP_CTCF_REP1_T1_1_val_1_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/H1ESC_CTCF_REP1_T1_1_val_1_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/iHEP_IgG_REP1_T1_2_val_2_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/iHEP_input_REP1_T1_2_val_2_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/iHEP_C-Rad21_REP1_T1_2_val_2_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/H1ESC_IgG_REP1_T1_1_val_1_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/H1ESC_input_REP1_T1_2_val_2_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/iHEP_CTCF_REP1_T1_2_val_2_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/H1ESC_C-Rad21_REP1_T1_1_val_1_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/iHEP_input_REP1_T1_1_val_1_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/H1ESC_CTCF_REP1_T1_2_val_2_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/iHEP_IgG_REP1_T1_1_val_1_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/H1ESC_input_REP1_T1_1_val_1_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/iHEP_CTCF_REP1_T1_1_val_1_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/iHEP_C-Rad21_REP1_T1_1_val_1_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/H1ESC_IgG_REP1_T1_2_val_2_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/zips/H1ESC_C-Rad21_REP1_T1_2_val_2_fastqc.zip: OK
./LY_Chip-seq/results/trimgalore/fastqc/iHEP_C-Rad21_REP1_T1_1_val_1_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/H1ESC_input_REP1_T1_1_val_1_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/iHEP_input_REP1_T1_1_val_1_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/iHEP_C-Rad21_REP1_T1_2_val_2_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/H1ESC_input_REP1_T1_2_val_2_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/iHEP_input_REP1_T1_2_val_2_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/H1ESC_IgG_REP1_T1_1_val_1_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/H1ESC_CTCF_REP1_T1_1_val_1_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/H1ESC_IgG_REP1_T1_2_val_2_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/fastqc/H1ESC_CTCF_REP1_T1_2_val_2_fastqc.html: OK
./LY_Chip-seq/results/trimgalore/logs/iHEP_CTCF_REP1_T1_2.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/iHEP_C-Rad21_REP1_T1_1.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/H1ESC_CTCF_REP1_T1_1.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/iHEP_input_REP1_T1_2.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/H1ESC_IgG_REP1_T1_2.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/H1ESC_IgG_REP1_T1_1.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/H1ESC_CTCF_REP1_T1_2.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/iHEP_input_REP1_T1_1.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/iHEP_CTCF_REP1_T1_1.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/iHEP_C-Rad21_REP1_T1_2.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/iHEP_IgG_REP1_T1_1.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/H1ESC_input_REP1_T1_2.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/H1ESC_C-Rad21_REP1_T1_1.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/H1ESC_C-Rad21_REP1_T1_2.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/iHEP_IgG_REP1_T1_2.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/results/trimgalore/logs/H1ESC_input_REP1_T1_1.fastq.gz_trimming_report.txt: OK
./LY_Chip-seq/H1ESC_IgG_S4_L001_R2_001.fastq.gz: OK
./LY_Chip-seq/iHEP_CTCF_S5_L001_R2_001.fastq.gz: OK
./LY_Chip-seq/H1ESC_IgG_S4_L001_R1_001.fastq.gz: OK
./LY_Chip-seq/iHEP_CTCF_S5_L001_R1_001.fastq.gz: OK
./LY_Chip-seq/H1ESC_CTCF_S1_L001_R2_001.fastq.gz: OK
./LY_Chip-seq/H1ESC_CTCF_S1_L001_R1_001.fastq.gz: OK
./LY_Chip-seq/20250718_ChIP.csv: OK
./LY_Chip-seq/iHEP_C-Rad21_S6_L001_R2_001.fastq.gz: OK
./LY_Chip-seq/iHEP_C-Rad21_S6_L001_R1_001.fastq.gz: OK
./sha256-checksums.txt: FAILED
./JHG_RNA-seq/DE-3C_S14_L001_R2_001.fastq.gz: OK
./JHG_RNA-seq/20250717_RNA.csv: OK
./JHG_RNA-seq/DE-3C_S14_L001_R1_001.fastq.gz: OK
./JHG_RNA-seq/trimgalore/DE-7_trimmed_2.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-6_trimmed_1.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-2_trimmed_1.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/HB_trimmed_1.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-3_trimmed_2.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-3_trimmed_1.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-2_trimmed_2.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/HB_trimmed_2.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-6_trimmed_2.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-7_trimmed_1.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-1_trimmed_1.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-3C_trimmed_2.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-5_trimmed_1.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-4_trimmed_2.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-4_trimmed_1.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-5_trimmed_2.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-3C_trimmed_1.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/trimgalore/DE-1_trimmed_2.fastq.gz_trimming_report.txt: OK
./JHG_RNA-seq/DE-2_S12_L001_R2_001.fastq.gz: OK
./JHG_RNA-seq/fq_lint/raw/DE-2.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/raw/DE-4.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/raw/DE-6.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/raw/DE-5.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/raw/HB.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/raw/DE-3C.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/raw/DE-7.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/raw/DE-1.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/raw/DE-3.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/trimmed/DE-3.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/trimmed/DE-3C.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/trimmed/DE-1.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/trimmed/HB.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/trimmed/DE-7.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/trimmed/DE-5.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/trimmed/DE-6.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/trimmed/DE-4.fq_lint.txt: OK
./JHG_RNA-seq/fq_lint/trimmed/DE-2.fq_lint.txt: OK
./JHG_RNA-seq/star_salmon/picard_metrics/DE-3.markdup.sorted.MarkDuplicates.metrics.txt: OK
./JHG_RNA-seq/star_salmon/picard_metrics/DE-4.markdup.sorted.MarkDuplicates.metrics.txt: OK
./JHG_RNA-seq/star_salmon/picard_metrics/DE-2.markdup.sorted.MarkDuplicates.metrics.txt: OK
./JHG_RNA-seq/star_salmon/picard_metrics/DE-5.markdup.sorted.MarkDuplicates.metrics.txt: OK
./JHG_RNA-seq/star_salmon/picard_metrics/HB.markdup.sorted.MarkDuplicates.metrics.txt: OK
./JHG_RNA-seq/star_salmon/picard_metrics/DE-6.markdup.sorted.MarkDuplicates.metrics.txt: OK
./JHG_RNA-seq/star_salmon/picard_metrics/DE-1.markdup.sorted.MarkDuplicates.metrics.txt: OK
./JHG_RNA-seq/star_salmon/picard_metrics/DE-7.markdup.sorted.MarkDuplicates.metrics.txt: OK
./JHG_RNA-seq/star_salmon/picard_metrics/DE-3C.markdup.sorted.MarkDuplicates.metrics.txt: OK
./JHG_RNA-seq/star_salmon/DE-3C/cmd_info.json: OK
./JHG_RNA-seq/star_salmon/DE-3C/quant.genes.sf: OK
./JHG_RNA-seq/star_salmon/DE-3C/quant.sf: OK
./JHG_RNA-seq/star_salmon/DE-3C/libParams/flenDist.txt: OK
./JHG_RNA-seq/star_salmon/DE-3C/aux_info/ambig_info.tsv: OK
./JHG_RNA-seq/star_salmon/DE-3C/aux_info/expected_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-3C/aux_info/meta_info.json: OK
./JHG_RNA-seq/star_salmon/DE-3C/aux_info/observed_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-3C/aux_info/observed_bias_3p.gz: OK
./JHG_RNA-seq/star_salmon/DE-3C/aux_info/fld.gz: OK
./JHG_RNA-seq/star_salmon/DE-3C/logs/salmon_quant.log: OK
./JHG_RNA-seq/star_salmon/DE-1/logs/salmon_quant.log: OK
./JHG_RNA-seq/star_salmon/DE-1/aux_info/fld.gz: OK
./JHG_RNA-seq/star_salmon/DE-1/aux_info/ambig_info.tsv: OK
./JHG_RNA-seq/star_salmon/DE-1/aux_info/expected_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-1/aux_info/observed_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-1/aux_info/observed_bias_3p.gz: OK
./JHG_RNA-seq/star_salmon/DE-1/aux_info/meta_info.json: OK
./JHG_RNA-seq/star_salmon/DE-1/quant.genes.sf: OK
./JHG_RNA-seq/star_salmon/DE-1/cmd_info.json: OK
./JHG_RNA-seq/star_salmon/DE-1/quant.sf: OK
./JHG_RNA-seq/star_salmon/DE-1/libParams/flenDist.txt: OK
./JHG_RNA-seq/star_salmon/DE-6/logs/salmon_quant.log: OK
./JHG_RNA-seq/star_salmon/DE-6/libParams/flenDist.txt: OK
./JHG_RNA-seq/star_salmon/DE-6/quant.genes.sf: OK
./JHG_RNA-seq/star_salmon/DE-6/quant.sf: OK
./JHG_RNA-seq/star_salmon/DE-6/aux_info/observed_bias_3p.gz: OK
./JHG_RNA-seq/star_salmon/DE-6/aux_info/ambig_info.tsv: OK
./JHG_RNA-seq/star_salmon/DE-6/aux_info/fld.gz: OK
./JHG_RNA-seq/star_salmon/DE-6/aux_info/observed_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-6/aux_info/expected_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-6/aux_info/meta_info.json: OK
./JHG_RNA-seq/star_salmon/DE-6/cmd_info.json: OK
./JHG_RNA-seq/star_salmon/salmon.merged.transcript_counts.tsv: OK
./JHG_RNA-seq/star_salmon/salmon.merged.gene_counts_length_scaled.tsv: OK
./JHG_RNA-seq/star_salmon/salmon.merged.gene_counts.tsv: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-6.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-1.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-3C.markdup.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/HB.markdup.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-3C.markdup.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/HB.markdup.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-6.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-1.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-2.markdup.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-6.markdup.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-4.markdup.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-2.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/HB.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-5.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-3C.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-2.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/HB.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-5.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-2.markdup.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-6.markdup.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-4.markdup.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-7.markdup.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-5.markdup.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-3.markdup.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-3.markdup.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-2.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-2.markdup.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-1.markdup.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-7.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-3C.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-3.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-1.markdup.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-4.markdup.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-3C.markdup.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-3C.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-5.markdup.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-7.markdup.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-1.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-5.markdup.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-7.markdup.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-3.markdup.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-6.markdup.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-7.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-1.markdup.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-7.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-4.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/HB.markdup.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-3.sorted.bam.idxstats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-6.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-5.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/HB.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-4.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-3.sorted.bam.flagstat: OK
./JHG_RNA-seq/star_salmon/samtools_stats/DE-4.sorted.bam.stats: OK
./JHG_RNA-seq/star_salmon/DE-2/logs/salmon_quant.log: OK
./JHG_RNA-seq/star_salmon/DE-2/quant.sf: OK
./JHG_RNA-seq/star_salmon/DE-2/cmd_info.json: OK
./JHG_RNA-seq/star_salmon/DE-2/libParams/flenDist.txt: OK
./JHG_RNA-seq/star_salmon/DE-2/aux_info/fld.gz: OK
./JHG_RNA-seq/star_salmon/DE-2/aux_info/ambig_info.tsv: OK
./JHG_RNA-seq/star_salmon/DE-2/aux_info/observed_bias_3p.gz: OK
./JHG_RNA-seq/star_salmon/DE-2/aux_info/observed_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-2/aux_info/expected_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-2/aux_info/meta_info.json: OK
./JHG_RNA-seq/star_salmon/DE-2/quant.genes.sf: OK
./JHG_RNA-seq/star_salmon/salmon.merged.transcript_lengths.tsv: OK
./JHG_RNA-seq/star_salmon/DE-5/quant.sf: OK
./JHG_RNA-seq/star_salmon/DE-5/cmd_info.json: OK
./JHG_RNA-seq/star_salmon/DE-5/aux_info/meta_info.json: OK
./JHG_RNA-seq/star_salmon/DE-5/aux_info/expected_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-5/aux_info/observed_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-5/aux_info/ambig_info.tsv: OK
./JHG_RNA-seq/star_salmon/DE-5/aux_info/fld.gz: OK
./JHG_RNA-seq/star_salmon/DE-5/aux_info/observed_bias_3p.gz: OK
./JHG_RNA-seq/star_salmon/DE-5/logs/salmon_quant.log: OK
./JHG_RNA-seq/star_salmon/DE-5/libParams/flenDist.txt: OK
./JHG_RNA-seq/star_salmon/DE-5/quant.genes.sf: OK
./JHG_RNA-seq/star_salmon/dupradar/gene_data/DE-5_dupMatrix.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/gene_data/DE-2_dupMatrix.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/gene_data/DE-7_dupMatrix.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/gene_data/DE-6_dupMatrix.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/gene_data/DE-3_dupMatrix.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/gene_data/DE-3C_dupMatrix.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/gene_data/DE-1_dupMatrix.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/gene_data/HB_dupMatrix.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/gene_data/DE-4_dupMatrix.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/histogram/DE-1_expressionHist.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/histogram/DE-6_expressionHist.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/histogram/DE-3_expressionHist.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/histogram/DE-4_expressionHist.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/histogram/DE-5_expressionHist.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/histogram/DE-2_expressionHist.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/histogram/HB_expressionHist.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/histogram/DE-7_expressionHist.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/histogram/DE-3C_expressionHist.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/intercepts_slope/DE-3_intercept_slope.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/intercepts_slope/DE-4_intercept_slope.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/intercepts_slope/DE-7_intercept_slope.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/intercepts_slope/HB_intercept_slope.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/intercepts_slope/DE-5_intercept_slope.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/intercepts_slope/DE-2_intercept_slope.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/intercepts_slope/DE-3C_intercept_slope.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/intercepts_slope/DE-1_intercept_slope.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/intercepts_slope/DE-6_intercept_slope.txt: OK
./JHG_RNA-seq/star_salmon/dupradar/box_plot/HB_duprateExpBoxplot.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/box_plot/DE-4_duprateExpBoxplot.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/box_plot/DE-2_duprateExpBoxplot.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/box_plot/DE-5_duprateExpBoxplot.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/box_plot/DE-3_duprateExpBoxplot.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/box_plot/DE-3C_duprateExpBoxplot.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/box_plot/DE-6_duprateExpBoxplot.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/box_plot/DE-1_duprateExpBoxplot.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/box_plot/DE-7_duprateExpBoxplot.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/scatter_plot/DE-4_duprateExpDens.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/scatter_plot/DE-3_duprateExpDens.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/scatter_plot/DE-6_duprateExpDens.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/scatter_plot/HB_duprateExpDens.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/scatter_plot/DE-1_duprateExpDens.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/scatter_plot/DE-3C_duprateExpDens.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/scatter_plot/DE-7_duprateExpDens.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/scatter_plot/DE-2_duprateExpDens.pdf: OK
./JHG_RNA-seq/star_salmon/dupradar/scatter_plot/DE-5_duprateExpDens.pdf: OK
./JHG_RNA-seq/star_salmon/salmon.merged.gene_tpm.tsv: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/pdf/DE-7.junctionSaturation_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/pdf/DE-5.junctionSaturation_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/pdf/DE-3.junctionSaturation_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/pdf/DE-1.junctionSaturation_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/pdf/DE-2.junctionSaturation_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/pdf/DE-6.junctionSaturation_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/pdf/DE-4.junctionSaturation_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/pdf/DE-3C.junctionSaturation_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/pdf/HB.junctionSaturation_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/rscript/DE-4.junctionSaturation_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/rscript/DE-7.junctionSaturation_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/rscript/DE-2.junctionSaturation_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/rscript/DE-1.junctionSaturation_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/rscript/HB.junctionSaturation_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/rscript/DE-5.junctionSaturation_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/rscript/DE-3C.junctionSaturation_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/rscript/DE-6.junctionSaturation_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_saturation/rscript/DE-3.junctionSaturation_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/read_distribution/DE-2.read_distribution.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/read_distribution/DE-4.read_distribution.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/read_distribution/DE-3C.read_distribution.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/read_distribution/DE-3.read_distribution.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/read_distribution/DE-5.read_distribution.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/read_distribution/HB.read_distribution.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/read_distribution/DE-6.read_distribution.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/read_distribution/DE-7.read_distribution.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/read_distribution/DE-1.read_distribution.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/infer_experiment/DE-5.infer_experiment.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/infer_experiment/HB.infer_experiment.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/infer_experiment/DE-3.infer_experiment.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/infer_experiment/DE-4.infer_experiment.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/infer_experiment/DE-2.infer_experiment.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/infer_experiment/DE-7.infer_experiment.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/infer_experiment/DE-1.infer_experiment.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/infer_experiment/DE-3C.infer_experiment.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/infer_experiment/DE-6.infer_experiment.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/pdf/HB.DupRate_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/pdf/DE-5.DupRate_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/pdf/DE-4.DupRate_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/pdf/DE-7.DupRate_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/pdf/DE-6.DupRate_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/pdf/DE-1.DupRate_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/pdf/DE-3C.DupRate_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/pdf/DE-2.DupRate_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/pdf/DE-3.DupRate_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-5.seq.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-2.pos.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-3C.pos.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-4.seq.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/HB.pos.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-3.pos.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-7.seq.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-1.pos.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-6.seq.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-7.pos.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-6.pos.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-1.seq.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-2.seq.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-3C.seq.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-5.pos.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-3.seq.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/HB.seq.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/xls/DE-4.pos.DupRate.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/rscript/DE-7.DupRate_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/rscript/DE-5.DupRate_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/rscript/HB.DupRate_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/rscript/DE-2.DupRate_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/rscript/DE-3C.DupRate_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/rscript/DE-4.DupRate_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/rscript/DE-3.DupRate_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/rscript/DE-1.DupRate_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/read_duplication/rscript/DE-6.DupRate_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-6.inner_distance_freq.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/HB.inner_distance_mean.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-2.inner_distance_freq.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-3.inner_distance.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-3C.inner_distance_mean.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-4.inner_distance.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-4.inner_distance_mean.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-3.inner_distance_mean.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-7.inner_distance_mean.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/HB.inner_distance.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-1.inner_distance.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-5.inner_distance_freq.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-6.inner_distance.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-1.inner_distance_freq.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-1.inner_distance_mean.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-5.inner_distance_mean.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-7.inner_distance.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-7.inner_distance_freq.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-3.inner_distance_freq.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-4.inner_distance_freq.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-3C.inner_distance.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-5.inner_distance.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-3C.inner_distance_freq.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-2.inner_distance_mean.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-2.inner_distance.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/HB.inner_distance_freq.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/txt/DE-6.inner_distance_mean.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/pdf/DE-4.inner_distance_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/pdf/DE-7.inner_distance_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/pdf/DE-3.inner_distance_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/pdf/DE-5.inner_distance_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/pdf/DE-1.inner_distance_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/pdf/DE-3C.inner_distance_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/pdf/HB.inner_distance_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/pdf/DE-6.inner_distance_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/pdf/DE-2.inner_distance_plot.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/rscript/DE-2.inner_distance_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/rscript/DE-4.inner_distance_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/rscript/DE-3.inner_distance_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/rscript/DE-5.inner_distance_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/rscript/DE-6.inner_distance_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/rscript/DE-3C.inner_distance_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/rscript/DE-7.inner_distance_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/rscript/DE-1.inner_distance_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/inner_distance/rscript/HB.inner_distance_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-3C.splice_events.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-7.splice_junction.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-7.splice_events.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/HB.splice_junction.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-1.splice_events.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-6.splice_events.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-3.splice_junction.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-4.splice_junction.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-3C.splice_junction.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-5.splice_events.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-3.splice_events.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-1.splice_junction.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-6.splice_junction.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-4.splice_events.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-5.splice_junction.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/HB.splice_events.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-2.splice_junction.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/pdf/DE-2.splice_events.pdf: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-3.junction.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-2.junction.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-3C.junction.Interact.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/HB.junction.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-1.junction.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-4.junction.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-5.junction.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-4.junction.Interact.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-7.junction.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-6.junction.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-2.junction.Interact.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/HB.junction.Interact.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-3C.junction.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-5.junction.Interact.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-3.junction.Interact.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-6.junction.Interact.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-1.junction.Interact.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/bed/DE-7.junction.Interact.bed: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/log/DE-4.junction_annotation.log: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/log/DE-3.junction_annotation.log: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/log/DE-7.junction_annotation.log: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/log/DE-3C.junction_annotation.log: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/log/DE-1.junction_annotation.log: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/log/DE-5.junction_annotation.log: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/log/DE-2.junction_annotation.log: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/log/DE-6.junction_annotation.log: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/log/HB.junction_annotation.log: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/xls/DE-3C.junction.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/xls/DE-5.junction.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/xls/DE-4.junction.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/xls/DE-6.junction.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/xls/DE-7.junction.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/xls/DE-2.junction.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/xls/DE-3.junction.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/xls/DE-1.junction.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/xls/HB.junction.xls: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/rscript/DE-5.junction_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/rscript/DE-4.junction_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/rscript/DE-3C.junction_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/rscript/DE-7.junction_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/rscript/DE-6.junction_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/rscript/HB.junction_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/rscript/DE-1.junction_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/rscript/DE-2.junction_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/junction_annotation/rscript/DE-3.junction_plot.r: OK
./JHG_RNA-seq/star_salmon/rseqc/bam_stat/DE-5.bam_stat.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/bam_stat/DE-4.bam_stat.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/bam_stat/DE-3C.bam_stat.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/bam_stat/DE-6.bam_stat.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/bam_stat/DE-7.bam_stat.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/bam_stat/DE-2.bam_stat.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/bam_stat/DE-3.bam_stat.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/bam_stat/DE-1.bam_stat.txt: OK
./JHG_RNA-seq/star_salmon/rseqc/bam_stat/HB.bam_stat.txt: OK
./JHG_RNA-seq/star_salmon/null.merged.SummarizedExperiment.rds: OK
./JHG_RNA-seq/star_salmon/log/DE-6.Log.final.out: OK
./JHG_RNA-seq/star_salmon/log/DE-2.SJ.out.tab: OK
./JHG_RNA-seq/star_salmon/log/DE-3.Log.final.out: OK
./JHG_RNA-seq/star_salmon/log/DE-7.Log.out: OK
./JHG_RNA-seq/star_salmon/log/DE-3.Log.out: OK
./JHG_RNA-seq/star_salmon/log/DE-5.SJ.out.tab: OK
./JHG_RNA-seq/star_salmon/log/DE-3C.Log.progress.out: OK
./JHG_RNA-seq/star_salmon/log/DE-6.Log.out: OK
./JHG_RNA-seq/star_salmon/log/DE-2.Log.out: OK
./JHG_RNA-seq/star_salmon/log/DE-1.Log.final.out: OK
./JHG_RNA-seq/star_salmon/log/DE-4.Log.final.out: OK
./JHG_RNA-seq/star_salmon/log/DE-7.SJ.out.tab: OK
./JHG_RNA-seq/star_salmon/log/DE-5.Log.final.out: OK
./JHG_RNA-seq/star_salmon/log/DE-4.Log.progress.out: OK
./JHG_RNA-seq/star_salmon/log/DE-6.SJ.out.tab: OK
./JHG_RNA-seq/star_salmon/log/DE-4.Log.out: OK
./JHG_RNA-seq/star_salmon/log/DE-5.Log.progress.out: OK
./JHG_RNA-seq/star_salmon/log/DE-1.SJ.out.tab: OK
./JHG_RNA-seq/star_salmon/log/DE-6.Log.progress.out: OK
./JHG_RNA-seq/star_salmon/log/DE-3C.SJ.out.tab: OK
./JHG_RNA-seq/star_salmon/log/DE-7.Log.progress.out: OK
./JHG_RNA-seq/star_salmon/log/HB.Log.progress.out: OK
./JHG_RNA-seq/star_salmon/log/DE-3C.Log.final.out: OK
./JHG_RNA-seq/star_salmon/log/HB.Log.final.out: OK
./JHG_RNA-seq/star_salmon/log/DE-1.Log.progress.out: OK
./JHG_RNA-seq/star_salmon/log/DE-4.SJ.out.tab: OK
./JHG_RNA-seq/star_salmon/log/HB.Log.out: OK
./JHG_RNA-seq/star_salmon/log/DE-2.Log.final.out: OK
./JHG_RNA-seq/star_salmon/log/DE-3.Log.progress.out: OK
./JHG_RNA-seq/star_salmon/log/DE-3.SJ.out.tab: OK
./JHG_RNA-seq/star_salmon/log/DE-3C.Log.out: OK
./JHG_RNA-seq/star_salmon/log/DE-7.Log.final.out: OK
./JHG_RNA-seq/star_salmon/log/DE-2.Log.progress.out: OK
./JHG_RNA-seq/star_salmon/log/HB.SJ.out.tab: OK
./JHG_RNA-seq/star_salmon/log/DE-5.Log.out: OK
./JHG_RNA-seq/star_salmon/log/DE-1.Log.out: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/plus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/down.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/agogo.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/basic.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/underscore.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/bgtop.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/comment-bright.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/minus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/comment.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/up-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/file.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/searchtools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/pygments.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/up.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/jquery.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/doctools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/ajax-loader.gif: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/comment-close.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/report.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/websupport.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/down-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/qualimap_logo_small.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/css/bgfooter.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/raw_data_qualimapReport/coverage_profile_along_genes_(total).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/raw_data_qualimapReport/coverage_profile_along_genes_(low).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/raw_data_qualimapReport/coverage_profile_along_genes_(high).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/qualimapReport.html: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/images_qualimapReport/Transcript coverage histogram.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/images_qualimapReport/Coverage Profile Along Genes (Low).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/images_qualimapReport/Junction Analysis.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/images_qualimapReport/Reads Genomic Origin.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/images_qualimapReport/Coverage Profile Along Genes (Total).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/images_qualimapReport/Coverage Profile Along Genes (High).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-7/rnaseq_qc_results.txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/raw_data_qualimapReport/coverage_profile_along_genes_(total).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/raw_data_qualimapReport/coverage_profile_along_genes_(low).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/raw_data_qualimapReport/coverage_profile_along_genes_(high).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/qualimapReport.html: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/images_qualimapReport/Coverage Profile Along Genes (Low).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/images_qualimapReport/Junction Analysis.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/images_qualimapReport/Reads Genomic Origin.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/images_qualimapReport/Coverage Profile Along Genes (Total).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/images_qualimapReport/Coverage Profile Along Genes (High).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/images_qualimapReport/Transcript coverage histogram.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/rnaseq_qc_results.txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/pygments.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/websupport.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/plus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/down.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/down-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/report.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/qualimap_logo_small.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/ajax-loader.gif: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/doctools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/comment-bright.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/up.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/searchtools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/bgfooter.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/jquery.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/file.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/comment.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/up-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/minus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/comment-close.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/basic.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/agogo.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/underscore.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3/css/bgtop.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/rnaseq_qc_results.txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/images_qualimapReport/Junction Analysis.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/images_qualimapReport/Reads Genomic Origin.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/images_qualimapReport/Coverage Profile Along Genes (Total).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/images_qualimapReport/Coverage Profile Along Genes (High).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/images_qualimapReport/Transcript coverage histogram.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/images_qualimapReport/Coverage Profile Along Genes (Low).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/raw_data_qualimapReport/coverage_profile_along_genes_(total).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/raw_data_qualimapReport/coverage_profile_along_genes_(low).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/raw_data_qualimapReport/coverage_profile_along_genes_(high).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/pygments.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/minus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/doctools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/file.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/underscore.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/comment-bright.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/bgtop.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/qualimap_logo_small.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/up-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/basic.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/bgfooter.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/agogo.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/searchtools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/ajax-loader.gif: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/plus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/down.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/down-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/comment.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/jquery.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/comment-close.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/websupport.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/up.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/css/report.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-4/qualimapReport.html: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/qualimapReport.html: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/down-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/pygments.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/minus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/comment-bright.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/up-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/file.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/bgtop.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/comment.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/ajax-loader.gif: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/websupport.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/basic.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/agogo.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/up.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/bgfooter.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/down.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/plus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/underscore.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/report.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/jquery.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/qualimap_logo_small.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/comment-close.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/searchtools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/css/doctools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/rnaseq_qc_results.txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/raw_data_qualimapReport/coverage_profile_along_genes_(high).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/raw_data_qualimapReport/coverage_profile_along_genes_(low).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/raw_data_qualimapReport/coverage_profile_along_genes_(total).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/images_qualimapReport/Coverage Profile Along Genes (High).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/images_qualimapReport/Transcript coverage histogram.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/images_qualimapReport/Coverage Profile Along Genes (Low).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/images_qualimapReport/Coverage Profile Along Genes (Total).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/images_qualimapReport/Reads Genomic Origin.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-6/images_qualimapReport/Junction Analysis.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/ajax-loader.gif: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/jquery.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/doctools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/comment-bright.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/up.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/qualimap_logo_small.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/down.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/plus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/searchtools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/comment-close.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/underscore.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/report.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/up-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/minus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/websupport.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/down-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/pygments.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/bgtop.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/bgfooter.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/file.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/comment.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/basic.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/css/agogo.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/raw_data_qualimapReport/coverage_profile_along_genes_(low).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/raw_data_qualimapReport/coverage_profile_along_genes_(total).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/raw_data_qualimapReport/coverage_profile_along_genes_(high).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/qualimapReport.html: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/images_qualimapReport/Coverage Profile Along Genes (Low).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/images_qualimapReport/Transcript coverage histogram.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/images_qualimapReport/Coverage Profile Along Genes (Total).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/images_qualimapReport/Coverage Profile Along Genes (High).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/images_qualimapReport/Reads Genomic Origin.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/images_qualimapReport/Junction Analysis.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-1/rnaseq_qc_results.txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/qualimapReport.html: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/images_qualimapReport/Transcript coverage histogram.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/images_qualimapReport/Coverage Profile Along Genes (Low).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/images_qualimapReport/Coverage Profile Along Genes (High).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/images_qualimapReport/Junction Analysis.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/images_qualimapReport/Reads Genomic Origin.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/images_qualimapReport/Coverage Profile Along Genes (Total).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/rnaseq_qc_results.txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/raw_data_qualimapReport/coverage_profile_along_genes_(high).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/raw_data_qualimapReport/coverage_profile_along_genes_(low).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/raw_data_qualimapReport/coverage_profile_along_genes_(total).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/websupport.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/jquery.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/down-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/up.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/comment-close.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/plus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/down.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/up-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/doctools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/ajax-loader.gif: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/searchtools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/bgfooter.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/bgtop.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/agogo.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/basic.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/comment-bright.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/minus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/comment.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/file.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/underscore.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/report.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/qualimap_logo_small.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-5/css/pygments.css: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/qualimap_logo_small.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/up-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/jquery.js: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/file.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/doctools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/up.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/websupport.js: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/comment-bright.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/minus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/report.css: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/down-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/pygments.css: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/comment-close.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/underscore.js: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/ajax-loader.gif: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/bgfooter.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/bgtop.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/comment.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/agogo.css: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/plus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/down.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/searchtools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/css/basic.css: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/raw_data_qualimapReport/coverage_profile_along_genes_(total).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/raw_data_qualimapReport/coverage_profile_along_genes_(high).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/raw_data_qualimapReport/coverage_profile_along_genes_(low).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/qualimapReport.html: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/rnaseq_qc_results.txt: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/images_qualimapReport/Coverage Profile Along Genes (Total).png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/images_qualimapReport/Junction Analysis.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/images_qualimapReport/Transcript coverage histogram.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/images_qualimapReport/Reads Genomic Origin.png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/images_qualimapReport/Coverage Profile Along Genes (Low).png: OK
./JHG_RNA-seq/star_salmon/qualimap/HB/images_qualimapReport/Coverage Profile Along Genes (High).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/searchtools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/websupport.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/up.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/jquery.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/down-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/qualimap_logo_small.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/file.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/doctools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/comment-bright.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/report.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/agogo.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/pygments.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/basic.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/comment-close.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/ajax-loader.gif: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/bgtop.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/comment.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/down.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/plus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/minus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/bgfooter.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/up-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/css/underscore.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/images_qualimapReport/Reads Genomic Origin.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/images_qualimapReport/Coverage Profile Along Genes (Total).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/images_qualimapReport/Junction Analysis.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/images_qualimapReport/Transcript coverage histogram.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/images_qualimapReport/Coverage Profile Along Genes (High).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/images_qualimapReport/Coverage Profile Along Genes (Low).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/rnaseq_qc_results.txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/raw_data_qualimapReport/coverage_profile_along_genes_(high).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/raw_data_qualimapReport/coverage_profile_along_genes_(low).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/raw_data_qualimapReport/coverage_profile_along_genes_(total).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-2/qualimapReport.html: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/rnaseq_qc_results.txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/qualimapReport.html: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/images_qualimapReport/Junction Analysis.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/images_qualimapReport/Coverage Profile Along Genes (Total).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/images_qualimapReport/Coverage Profile Along Genes (High).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/images_qualimapReport/Reads Genomic Origin.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/images_qualimapReport/Transcript coverage histogram.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/images_qualimapReport/Coverage Profile Along Genes (Low).png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/raw_data_qualimapReport/coverage_profile_along_genes_(low).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/raw_data_qualimapReport/coverage_profile_along_genes_(total).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/raw_data_qualimapReport/coverage_profile_along_genes_(high).txt: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/underscore.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/comment-close.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/plus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/down.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/up-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/qualimap_logo_small.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/up.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/doctools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/comment-bright.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/jquery.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/report.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/file.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/down-pressed.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/ajax-loader.gif: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/bgfooter.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/minus.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/basic.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/agogo.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/searchtools.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/websupport.js: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/pygments.css: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/bgtop.png: OK
./JHG_RNA-seq/star_salmon/qualimap/DE-3C/css/comment.png: OK
./JHG_RNA-seq/star_salmon/DE-7/logs/salmon_quant.log: OK
./JHG_RNA-seq/star_salmon/DE-7/quant.genes.sf: OK
./JHG_RNA-seq/star_salmon/DE-7/libParams/flenDist.txt: OK
./JHG_RNA-seq/star_salmon/DE-7/aux_info/meta_info.json: OK
./JHG_RNA-seq/star_salmon/DE-7/aux_info/observed_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-7/aux_info/expected_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-7/aux_info/fld.gz: OK
./JHG_RNA-seq/star_salmon/DE-7/aux_info/ambig_info.tsv: OK
./JHG_RNA-seq/star_salmon/DE-7/aux_info/observed_bias_3p.gz: OK
./JHG_RNA-seq/star_salmon/DE-7/quant.sf: OK
./JHG_RNA-seq/star_salmon/DE-7/cmd_info.json: OK
./JHG_RNA-seq/star_salmon/stringtie/HB.transcripts.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-6.gene.abundance.txt: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3C.coverage.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-6.ballgown/e2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-6.ballgown/t_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-6.ballgown/i_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-6.ballgown/i2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-6.ballgown/e_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3C.transcripts.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-1.transcripts.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-1.ballgown/e2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-1.ballgown/t_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-1.ballgown/i_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-1.ballgown/e_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-1.ballgown/i2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-1.gene.abundance.txt: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-7.ballgown/i_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-7.ballgown/i2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-7.ballgown/e_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-7.ballgown/e2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-7.ballgown/t_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3C.gene.abundance.txt: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-2.transcripts.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-4.gene.abundance.txt: OK
./JHG_RNA-seq/star_salmon/stringtie/HB.gene.abundance.txt: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3.transcripts.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3.gene.abundance.txt: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-6.coverage.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-7.coverage.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3.ballgown/e_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3.ballgown/i_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3.ballgown/e2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3.ballgown/i2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3.ballgown/t_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-5.transcripts.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-5.coverage.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-2.gene.abundance.txt: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-4.coverage.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-1.coverage.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/HB.ballgown/i_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/HB.ballgown/i2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/HB.ballgown/e_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/HB.ballgown/t_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/HB.ballgown/e2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-2.coverage.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-4.ballgown/t_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-4.ballgown/e2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-4.ballgown/i2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-4.ballgown/e_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-4.ballgown/i_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3.coverage.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-5.gene.abundance.txt: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-4.transcripts.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-2.ballgown/e_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-2.ballgown/e2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-2.ballgown/i_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-2.ballgown/t_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-2.ballgown/i2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-7.transcripts.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-6.transcripts.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-5.ballgown/t_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-5.ballgown/e2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-5.ballgown/e_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-5.ballgown/i2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-5.ballgown/i_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/HB.coverage.gtf: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-7.gene.abundance.txt: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3C.ballgown/i2t.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3C.ballgown/t_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3C.ballgown/i_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3C.ballgown/e_data.ctab: OK
./JHG_RNA-seq/star_salmon/stringtie/DE-3C.ballgown/e2t.ctab: OK
./JHG_RNA-seq/star_salmon/HB/libParams/flenDist.txt: OK
./JHG_RNA-seq/star_salmon/HB/quant.genes.sf: OK
./JHG_RNA-seq/star_salmon/HB/cmd_info.json: OK
./JHG_RNA-seq/star_salmon/HB/quant.sf: OK
./JHG_RNA-seq/star_salmon/HB/logs/salmon_quant.log: OK
./JHG_RNA-seq/star_salmon/HB/aux_info/ambig_info.tsv: OK
./JHG_RNA-seq/star_salmon/HB/aux_info/fld.gz: OK
./JHG_RNA-seq/star_salmon/HB/aux_info/observed_bias.gz: OK
./JHG_RNA-seq/star_salmon/HB/aux_info/expected_bias.gz: OK
./JHG_RNA-seq/star_salmon/HB/aux_info/meta_info.json: OK
./JHG_RNA-seq/star_salmon/HB/aux_info/observed_bias_3p.gz: OK
./JHG_RNA-seq/star_salmon/bigwig/HB.reverse.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-7.reverse.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-5.forward.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-2.forward.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-5.reverse.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-2.reverse.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/HB.forward.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-7.forward.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-1.forward.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-3C.forward.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-6.forward.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-4.reverse.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-3.reverse.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-4.forward.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-3.forward.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-1.reverse.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-3C.reverse.bigWig: OK
./JHG_RNA-seq/star_salmon/bigwig/DE-6.reverse.bigWig: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/deseq2.sample.dists.txt: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/deseq2.dds.RData: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/deseq2.plots.pdf: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/size_factors/deseq2.size_factors.RData: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/size_factors/DE.7.txt: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/size_factors/DE.6.txt: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/size_factors/DE.1.txt: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/size_factors/HB.txt: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/size_factors/DE.2.txt: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/size_factors/DE.5.txt: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/size_factors/DE.3C.txt: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/size_factors/DE.4.txt: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/size_factors/DE.3.txt: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/deseq2.pca.vals.txt: OK
./JHG_RNA-seq/star_salmon/deseq2_qc/R_sessionInfo.log: OK
./JHG_RNA-seq/star_salmon/salmon.merged.gene_lengths.tsv: OK
./JHG_RNA-seq/star_salmon/salmon.merged.gene_counts_scaled.tsv: OK
./JHG_RNA-seq/star_salmon/DE-4/quant.genes.sf: OK
./JHG_RNA-seq/star_salmon/DE-4/cmd_info.json: OK
./JHG_RNA-seq/star_salmon/DE-4/aux_info/observed_bias_3p.gz: OK
./JHG_RNA-seq/star_salmon/DE-4/aux_info/meta_info.json: OK
./JHG_RNA-seq/star_salmon/DE-4/aux_info/fld.gz: OK
./JHG_RNA-seq/star_salmon/DE-4/aux_info/ambig_info.tsv: OK
./JHG_RNA-seq/star_salmon/DE-4/aux_info/expected_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-4/aux_info/observed_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-4/libParams/flenDist.txt: OK
./JHG_RNA-seq/star_salmon/DE-4/logs/salmon_quant.log: OK
./JHG_RNA-seq/star_salmon/DE-4/quant.sf: OK
./JHG_RNA-seq/star_salmon/tx2gene.tsv: OK
./JHG_RNA-seq/star_salmon/salmon.merged.transcript_tpm.tsv: OK
./JHG_RNA-seq/star_salmon/DE-3/cmd_info.json: OK
./JHG_RNA-seq/star_salmon/DE-3/libParams/flenDist.txt: OK
./JHG_RNA-seq/star_salmon/DE-3/quant.sf: OK
./JHG_RNA-seq/star_salmon/DE-3/aux_info/observed_bias_3p.gz: OK
./JHG_RNA-seq/star_salmon/DE-3/aux_info/expected_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-3/aux_info/observed_bias.gz: OK
./JHG_RNA-seq/star_salmon/DE-3/aux_info/fld.gz: OK
./JHG_RNA-seq/star_salmon/DE-3/aux_info/ambig_info.tsv: OK
./JHG_RNA-seq/star_salmon/DE-3/aux_info/meta_info.json: OK
./JHG_RNA-seq/star_salmon/DE-3/logs/salmon_quant.log: OK
./JHG_RNA-seq/star_salmon/DE-3/quant.genes.sf: OK
./JHG_RNA-seq/DE-2_S12_L001_R1_001.fastq.gz: OK
./JHG_RNA-seq/DE-7_S18_L001_R1_001.fastq.gz: OK
./JHG_RNA-seq/JHG_RNA-seq_460735062.json: OK
./JHG_RNA-seq/DE-7_S18_L001_R2_001.fastq.gz: OK
./JHG_RNA-seq/DE-3_S13_L001_R2_001.fastq.gz: OK
./JHG_RNA-seq/DE-4_S15_L001_R1_001.fastq.gz: OK
./JHG_RNA-seq/DE-3_S13_L001_R1_001.fastq.gz: OK
./JHG_RNA-seq/DE-4_S15_L001_R2_001.fastq.gz: OK
./JHG_RNA-seq/HB_S19_L001_R2_001.fastq.gz: OK
./JHG_RNA-seq/rRNAFilter.zip: OK
./JHG_RNA-seq/rRNAFilter/rRNAFilter_commandline.jar: OK
./JHG_RNA-seq/rRNAFilter/count: OK
./JHG_RNA-seq/rRNAFilter/README: OK
./JHG_RNA-seq/rRNAFilter/kanalyze.jar: OK
./JHG_RNA-seq/rRNAFilter/rRNAFilter_GUI.jar: OK
./JHG_RNA-seq/rRNAFilter/java-getopt-1.0.14.jar: OK
./JHG_RNA-seq/HB_S19_L001_R1_001.fastq.gz: OK
./JHG_RNA-seq/DE-5_S16_L001_R2_001.fastq.gz: OK
./JHG_RNA-seq/DE-5_S16_L001_R1_001.fastq.gz: OK
./JHG_RNA-seq/fastqc/trim/DE-3_trimmed_1_val_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/DE-4_trimmed_2_val_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/DE-2_trimmed_1_val_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/DE-5_trimmed_2_val_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/DE-6_trimmed_2_val_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-4_trimmed_2_val_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-2_trimmed_2_val_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-7_trimmed_2_val_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/DE-3C_trimmed_1_val_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/HB_trimmed_1_val_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-6_trimmed_1_val_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/HB_trimmed_1_val_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/DE-4_trimmed_1_val_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-2_trimmed_1_val_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-1_trimmed_1_val_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/HB_trimmed_2_val_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-6_trimmed_2_val_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/DE-3_trimmed_2_val_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-4_trimmed_1_val_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/DE-1_trimmed_2_val_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-3C_trimmed_2_val_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-7_trimmed_2_val_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-3_trimmed_2_val_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/DE-5_trimmed_2_val_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-3_trimmed_1_val_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-3C_trimmed_1_val_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-1_trimmed_1_val_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-7_trimmed_1_val_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-5_trimmed_1_val_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/trim/DE-5_trimmed_1_val_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/DE-2_trimmed_2_val_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/DE-3C_trimmed_2_val_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/DE-7_trimmed_1_val_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/DE-6_trimmed_1_val_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/DE-1_trimmed_2_val_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/trim/HB_trimmed_2_val_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/HB_raw_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-5_raw_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-4_raw_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/HB_raw_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-5_raw_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-3_raw_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-7_raw_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-6_raw_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-6_raw_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-1_raw_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-3C_raw_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-4_raw_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-1_raw_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-3C_raw_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-2_raw_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-2_raw_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-7_raw_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-3_raw_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-7_raw_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-7_raw_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-6_raw_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-2_raw_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/HB_raw_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-4_raw_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-5_raw_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-3C_raw_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-1_raw_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-4_raw_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-2_raw_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-6_raw_2_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-3_raw_1_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-3_raw_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/HB_raw_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-5_raw_1_fastqc.html: OK
./JHG_RNA-seq/fastqc/raw/DE-3C_raw_2_fastqc.zip: OK
./JHG_RNA-seq/fastqc/raw/DE-1_raw_1_fastqc.zip: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report.html: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_raw_overrepresented_sequences_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/dupradar.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/rseqc_read_dups_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_raw_sequence_duplication_levels_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/cutadapt_filtered_reads_plot-cnt.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/samtools-idxstats-mapped-reads-plot_Normalised_Counts-cnt.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/rseqc_junction_saturation_plot_All_Junctions.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_trimmed_per_base_n_content_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_raw_per_sequence_gc_content_plot_Counts.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_raw_per_base_sequence_quality_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_raw-status-check-heatmap.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/rseqc_inner_distance_plot_Counts.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/rseqc_infer_experiment_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/samtools-idxstats-xy-plot-cnt.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_sequence_length_distribution_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/samtools-idxstats-mapped-reads-plot_Observed_over_Expected_Counts-cnt.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/rseqc_junction_annotation_junctions_plot_Junctions-cnt.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_trimmed_sequence_counts_plot-pct.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/samtools-idxstats-mapped-reads-plot_Raw_Counts-cnt.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_trimmed-status-check-heatmap.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/star_alignment_plot-pct.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_raw_sequence_counts_plot-cnt.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/samtools_alignment_plot-pct.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_trimmed_adapter_content_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/qualimap_genomic_origin-pct.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_trimmed_overrepresented_sequences_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/picard_deduplication-cnt.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/samtools-idxstats-mapped-reads-plot_Normalised_Counts-log.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_raw_adapter_content_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/sample-relationships.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_raw_per_base_n_content_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_trimmed_per_base_sequence_quality_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/samtools-idxstats-mapped-reads-plot_Observed_over_Expected_Counts-log.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/star_summary_table.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/rseqc_read_distribution_plot-cnt.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_raw_per_sequence_quality_scores_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/cutadapt_trimmed_sequences_plot_3_Obs_Exp.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/samtools-idxstats-mapped-reads-plot_Raw_Counts-log.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_trimmed_per_sequence_gc_content_plot_Counts.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/samtools-flagstat-table.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/rseqc_junction_annotation_junctions_plot_Events-cnt.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/rseqc_junction_saturation_plot_Known_Junctions.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/samtools-idxstats-xy-plot-pct.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/rseqc_inner_distance_plot_Percentages.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/rseqc_junction_annotation_junctions_plot_Junctions-pct.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_trimmed_sequence_counts_plot-cnt.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/star_alignment_plot-cnt.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/cutadapt_trimmed_sequences_plot_3_Counts.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/samtools_alignment_plot-cnt.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_raw_sequence_counts_plot-pct.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_trimmed_top_overrepresented_sequences_table.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_trimmed_per_sequence_gc_content_plot_Percentages.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/cutadapt_filtered_reads_plot-pct.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/rseqc_bam_stat.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_trimmed_sequence_duplication_levels_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/samtools-stats-dp.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/rseqc_junction_saturation_plot_Novel_Junctions.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fail_strand_check_table.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/samtools-flagstat-pct-table.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_raw_top_overrepresented_sequences_table.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/qualimap_gene_coverage_profile_Normalised.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/rseqc_read_distribution_plot-pct.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_raw_per_sequence_gc_content_plot_Percentages.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/rseqc_junction_annotation_junctions_plot_Events-pct.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/fastqc_trimmed_per_sequence_quality_scores_plot.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/qualimap_genomic_origin-cnt.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/picard_deduplication-pct.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/png/qualimap_gene_coverage_profile_Counts.png: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/picard_deduplication-pct.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/samtools-idxstats-xy-plot-cnt.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_raw_per_sequence_gc_content_plot_Counts.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/rseqc_inner_distance_plot_Percentages.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/samtools-idxstats-mapped-reads-plot_Observed_over_Expected_Counts-cnt.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/rseqc_read_dups_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_raw_sequence_counts_plot-pct.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/samtools-flagstat-table.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_trimmed_top_overrepresented_sequences_table.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_sequence_length_distribution_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/rseqc_read_distribution_plot-pct.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/rseqc_junction_annotation_junctions_plot_Junctions-cnt.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_trimmed_sequence_counts_plot-cnt.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_trimmed_per_base_n_content_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_trimmed_per_sequence_quality_scores_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/qualimap_genomic_origin-pct.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_raw_sequence_duplication_levels_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/rseqc_junction_saturation_plot_All_Junctions.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_trimmed_per_sequence_gc_content_plot_Percentages.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/samtools_alignment_plot-pct.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/cutadapt_filtered_reads_plot-pct.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/sample-relationships.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_trimmed_sequence_duplication_levels_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/rseqc_infer_experiment_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/samtools-idxstats-mapped-reads-plot_Observed_over_Expected_Counts-log.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_raw_per_sequence_quality_scores_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/rseqc_junction_annotation_junctions_plot_Events-cnt.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/qualimap_gene_coverage_profile_Normalised.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/star_alignment_plot-pct.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/samtools-stats-dp.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/qualimap_gene_coverage_profile_Counts.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/rseqc_junction_annotation_junctions_plot_Junctions-pct.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/rseqc_read_distribution_plot-cnt.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_trimmed_sequence_counts_plot-pct.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_raw-status-check-heatmap.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_raw_per_base_sequence_quality_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/qualimap_genomic_origin-cnt.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/rseqc_junction_saturation_plot_Known_Junctions.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/star_summary_table.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fail_strand_check_table.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/cutadapt_trimmed_sequences_plot_3_Counts.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/samtools-idxstats-mapped-reads-plot_Normalised_Counts-log.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/samtools-idxstats-xy-plot-pct.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/picard_deduplication-cnt.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_raw_overrepresented_sequences_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_trimmed-status-check-heatmap.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/samtools-idxstats-mapped-reads-plot_Raw_Counts-cnt.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_raw_sequence_counts_plot-cnt.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/samtools-flagstat-pct-table.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/rseqc_inner_distance_plot_Counts.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_trimmed_adapter_content_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/rseqc_junction_annotation_junctions_plot_Events-pct.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_trimmed_per_base_sequence_quality_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/star_alignment_plot-cnt.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_raw_per_sequence_gc_content_plot_Percentages.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/dupradar.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/rseqc_bam_stat.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/rseqc_junction_saturation_plot_Novel_Junctions.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_raw_top_overrepresented_sequences_table.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/cutadapt_trimmed_sequences_plot_3_Obs_Exp.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/samtools-idxstats-mapped-reads-plot_Normalised_Counts-cnt.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_trimmed_overrepresented_sequences_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/samtools_alignment_plot-cnt.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/cutadapt_filtered_reads_plot-cnt.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_raw_per_base_n_content_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_trimmed_per_sequence_gc_content_plot_Counts.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/samtools-idxstats-mapped-reads-plot_Raw_Counts-log.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/pdf/fastqc_raw_adapter_content_plot.pdf: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/samtools-idxstats-mapped-reads-plot_Normalised_Counts-log.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_raw_adapter_content_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_raw_sequence_counts_plot-cnt.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/samtools-flagstat-table.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/star_summary_table.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_trimmed-status-check-heatmap.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/samtools-idxstats-mapped-reads-plot_Observed_over_Expected_Counts-cnt.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/samtools-flagstat-pct-table.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_raw_per_sequence_quality_scores_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/rseqc_read_distribution_plot-pct.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/samtools-idxstats-xy-plot-pct.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/qualimap_gene_coverage_profile_Normalised.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/sample-relationships.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_raw_per_sequence_gc_content_plot_Counts.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/rseqc_inner_distance_plot_Percentages.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/rseqc_junction_annotation_junctions_plot_Junctions-cnt.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/qualimap_genomic_origin-cnt.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_trimmed_sequence_counts_plot-pct.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/samtools_alignment_plot-cnt.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/samtools-idxstats-mapped-reads-plot_Normalised_Counts-cnt.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_trimmed_per_sequence_gc_content_plot_Percentages.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/qualimap_gene_coverage_profile_Counts.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/picard_deduplication-cnt.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/star_alignment_plot-pct.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/samtools-idxstats-mapped-reads-plot_Observed_over_Expected_Counts-log.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/rseqc_bam_stat.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_trimmed_per_base_n_content_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_raw_per_sequence_gc_content_plot_Percentages.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_raw-status-check-heatmap.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/rseqc_junction_annotation_junctions_plot_Events-pct.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_trimmed_top_overrepresented_sequences_table.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_trimmed_adapter_content_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_raw_sequence_duplication_levels_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_sequence_length_distribution_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/cutadapt_filtered_reads_plot-pct.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/rseqc_read_dups_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_trimmed_sequence_duplication_levels_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/samtools-idxstats-xy-plot-cnt.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/rseqc_junction_annotation_junctions_plot_Junctions-pct.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/cutadapt_trimmed_sequences_plot_3_Obs_Exp.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/qualimap_genomic_origin-pct.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_trimmed_sequence_counts_plot-cnt.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_trimmed_per_sequence_gc_content_plot_Counts.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_raw_per_base_n_content_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_raw_sequence_counts_plot-pct.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/dupradar.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/samtools-idxstats-mapped-reads-plot_Raw_Counts-log.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fail_strand_check_table.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/rseqc_junction_saturation_plot_Known_Junctions.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/rseqc_read_distribution_plot-cnt.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_raw_per_base_sequence_quality_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_trimmed_per_base_sequence_quality_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/cutadapt_trimmed_sequences_plot_3_Counts.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/rseqc_junction_annotation_junctions_plot_Events-cnt.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/cutadapt_filtered_reads_plot-cnt.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/samtools-stats-dp.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/rseqc_junction_saturation_plot_All_Junctions.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_trimmed_per_sequence_quality_scores_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/samtools_alignment_plot-pct.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_raw_overrepresented_sequences_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/samtools-idxstats-mapped-reads-plot_Raw_Counts-cnt.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_trimmed_overrepresented_sequences_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/star_alignment_plot-cnt.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/picard_deduplication-pct.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/rseqc_junction_saturation_plot_Novel_Junctions.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/rseqc_inner_distance_plot_Counts.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/fastqc_raw_top_overrepresented_sequences_table.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_plots/svg/rseqc_infer_experiment_plot.svg: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/rseqc_read_dups.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_fastqc_fastqc_trimmed.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_raw_adapter_content_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/samtools-idxstats-mapped-reads-plot_Observed_over_Expected_Counts.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/qualimap_genomic_origin.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/samtools-flagstat-pct-table.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/qualimap_rnaseq_genome_results.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_samtools_idxstats.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_trimmed_adapter_content_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/cutadapt_trimmed_sequences_plot_3_Obs_Exp.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/rseqc_inner_distance_plot_Percentages.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_rseqc_bam_stat.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/samtools-idxstats-mapped-reads-plot_Normalised_Counts.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_raw_per_base_n_content_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/rseqc_junction_annotation_junctions_plot_Events.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/junction_saturation_novel.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_raw_overrepresented_sequences_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_trimmed-status-check-heatmap.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/cutadapt_trimmed_sequences_plot_3_Counts.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_trimmed_per_sequence_gc_content_plot_Counts.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/picard_MeanQualityByCycle_histogram.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_trimmed_sequence_counts_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/qualimap_gene_coverage_profile_Counts.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_raw_per_sequence_gc_content_plot_Counts.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_picard_dups.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/picard_MarkIlluminaAdapters_histogram.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_sources.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_raw_per_base_sequence_quality_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_trimmed_per_base_n_content_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_general_stats.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_raw-status-check-heatmap.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_citations.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/rseqc_bam_stat.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_samtools_flagstat.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/rseqc_read_distribution_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_raw_sequence_counts_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/rseqc_read_dups_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_rseqc_read_distribution.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/samtools-idxstats-xy-plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/rseqc_junction_saturation_all.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/samtools-stats-dp.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_sample-relationships.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_samtools_stats.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/samtools-flagstat-table.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/BETA-multiqc.parquet: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_raw_top_overrepresented_sequences_table.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/star_alignment_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/rseqc_junction_saturation_plot_Novel_Junctions.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/qualimap_gene_coverage_profile_Normalised.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_raw_sequence_duplication_levels_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/rseqc_inner_distance_plot_Counts.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/picard_deduplication.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_trimmed_top_overrepresented_sequences_table.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_sample-relationships_1.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc.log: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_star.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_rseqc_infer_experiment.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_rseqc_junction_annotation.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_trimmed_sequence_duplication_levels_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/star_summary_table.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/samtools-idxstats-mapped-reads-plot_Raw_Counts.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_fastqc_fastqc_raw.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_raw_per_sequence_gc_content_plot_Percentages.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/cutadapt_filtered_reads_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_trimmed_per_sequence_quality_scores_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/rseqc_junction_saturation_plot_Known_Junctions.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/rseqc_infer_experiment_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_cutadapt.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/rseqc_junction_saturation_plot_All_Junctions.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/rseqc_junction_annotation_junctions_plot_Junctions.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_dupradar.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_trimmed_overrepresented_sequences_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/samtools_alignment_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_fail_strand_check_table.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_trimmed_per_sequence_gc_content_plot_Percentages.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/rseqc_inner_distance.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/qualimap_rnaseq_cov_hist.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/picard_QualityScoreDistribution_histogram.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/junction_saturation_known.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_raw_per_sequence_quality_scores_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_software_versions.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_sequence_length_distribution_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/fastqc_trimmed_per_base_sequence_quality_plot.txt: OK
./JHG_RNA-seq/multiqc/star_salmon/multiqc_report_data/multiqc_data.json: OK
./JHG_RNA-seq/DE-1_S11_L001_R2_001.fastq.gz: OK
./JHG_RNA-seq/DE-6_S17_L001_R1_001.fastq.gz: OK
./JHG_RNA-seq/DE-1_S11_L001_R1_001.fastq.gz: OK
./JHG_RNA-seq/DE-6_S17_L001_R2_001.fastq.gz: OK
./hui: OK