Description of bug: After running MultiQC on Salmon output files, the generated plot is blank in the html report. However, MultiQC generated txt and json files seem okay, they contain fragment length and other types of data as well.
MultiQC Error log:
[2020-08-23 20:04:58,493] multiqc [DEBUG ] No MultiQC config found: /disk/work/users/bd1/softwares/anaconda3/envs/python3.7/lib/python3.7/site-packages/multiqc_config.yaml
[2020-08-23 20:04:58,493] multiqc [DEBUG ] No MultiQC config found: /home/bd1/.multiqc_config.yaml
[2020-08-23 20:04:58,493] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml
[2020-08-23 20:04:58,493] multiqc [DEBUG ] Command used: /disk/work/users/bd1/softwares/anaconda3/envs/python3.7/bin/multiqc -n dataset1_combined_multiqc /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS10_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS10_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS11_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS11_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS12_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS12_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS13_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS13_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS14_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS14_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS15_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS15_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS16_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS16_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS17_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS17_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS18_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS18_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS19_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS19_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS1_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS1_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS20_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS20_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS2_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS2_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS3_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS3_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS4_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS4_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS5_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS5_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS6_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS6_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS7_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS7_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS8_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS8_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS9_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS9_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control1_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control1_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control2_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control2_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control3_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control3_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control4_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control4_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control5_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control5_2_fastqc.zip /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS10_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS11_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS12_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS13_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS14_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS15_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS16_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS17_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS18_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS19_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS1_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS20_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS2_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS3_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS4_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS5_corrected_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS6_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS7_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS8_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS9_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/control1_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/control2_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/control3_corrected_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/control4_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/control5_Log.final.out /home/bd1/mds-datasets/dataset1/expression/salmon/MDS10_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS11_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS12_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS13_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS14_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS15_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS16_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS17_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS18_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS19_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS1_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS20_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS2_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS3_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS4_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS5_corrected_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS5_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS6_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS7_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS8_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS9_quant /home/bd1/mds-datasets/dataset1/expression/salmon/control1_quant /home/bd1/mds-datasets/dataset1/expression/salmon/control2_quant /home/bd1/mds-datasets/dataset1/expression/salmon/control3_corrected_quant /home/bd1/mds-datasets/dataset1/expression/salmon/control3_quant /home/bd1/mds-datasets/dataset1/expression/salmon/control4_quant /home/bd1/mds-datasets/dataset1/expression/salmon/control5_quant /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS1 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS10 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS11 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS12 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS13 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS14 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS15 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS16 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS17 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS18 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS19 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS2 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS20 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS3 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS4 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS5 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS5_corrected /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS6 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS7 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS8 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS9 /home/bd1/mds-datasets/dataset1/expression/kallisto/control1 /home/bd1/mds-datasets/dataset1/expression/kallisto/control2 /home/bd1/mds-datasets/dataset1/expression/kallisto/control3 /home/bd1/mds-datasets/dataset1/expression/kallisto/control3_corrected /home/bd1/mds-datasets/dataset1/expression/kallisto/control4 /home/bd1/mds-datasets/dataset1/expression/kallisto/control5 -m salmon
[2020-08-23 20:04:58,701] multiqc [DEBUG ] Latest MultiQC version is v1.9
[2020-08-23 20:04:58,701] multiqc [INFO ] This is MultiQC v1.9
[2020-08-23 20:04:58,701] multiqc [DEBUG ] Command : /disk/work/users/bd1/softwares/anaconda3/envs/python3.7/bin/multiqc -n dataset1_combined_multiqc /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS10_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS10_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS11_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS11_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS12_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS12_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS13_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS13_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS14_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS14_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS15_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS15_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS16_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS16_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS17_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS17_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS18_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS18_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS19_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS19_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS1_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS1_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS20_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS20_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS2_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS2_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS3_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS3_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS4_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS4_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS5_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS5_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS6_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS6_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS7_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS7_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS8_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS8_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS9_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS9_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control1_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control1_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control2_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control2_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control3_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control3_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control4_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control4_2_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control5_1_fastqc.zip /home/bd1/mds-datasets/dataset1/qc/fastqc/control5_2_fastqc.zip /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS10_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS11_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS12_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS13_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS14_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS15_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS16_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS17_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS18_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS19_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS1_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS20_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS2_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS3_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS4_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS5_corrected_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS6_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS7_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS8_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS9_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/control1_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/control2_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/control3_corrected_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/control4_Log.final.out /home/bd1/mds-datasets/dataset1/alignment/STAR/control5_Log.final.out /home/bd1/mds-datasets/dataset1/expression/salmon/MDS10_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS11_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS12_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS13_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS14_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS15_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS16_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS17_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS18_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS19_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS1_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS20_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS2_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS3_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS4_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS5_corrected_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS5_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS6_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS7_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS8_quant /home/bd1/mds-datasets/dataset1/expression/salmon/MDS9_quant /home/bd1/mds-datasets/dataset1/expression/salmon/control1_quant /home/bd1/mds-datasets/dataset1/expression/salmon/control2_quant /home/bd1/mds-datasets/dataset1/expression/salmon/control3_corrected_quant /home/bd1/mds-datasets/dataset1/expression/salmon/control3_quant /home/bd1/mds-datasets/dataset1/expression/salmon/control4_quant /home/bd1/mds-datasets/dataset1/expression/salmon/control5_quant /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS1 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS10 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS11 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS12 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS13 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS14 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS15 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS16 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS17 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS18 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS19 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS2 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS20 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS3 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS4 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS5 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS5_corrected /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS6 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS7 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS8 /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS9 /home/bd1/mds-datasets/dataset1/expression/kallisto/control1 /home/bd1/mds-datasets/dataset1/expression/kallisto/control2 /home/bd1/mds-datasets/dataset1/expression/kallisto/control3 /home/bd1/mds-datasets/dataset1/expression/kallisto/control3_corrected /home/bd1/mds-datasets/dataset1/expression/kallisto/control4 /home/bd1/mds-datasets/dataset1/expression/kallisto/control5 -m salmon
[2020-08-23 20:04:58,701] multiqc [DEBUG ] Working dir : /disk/work/shared/data/MDS/dataset1/qc/multiqc_combined
[2020-08-23 20:04:58,701] multiqc [INFO ] Template : default
[2020-08-23 20:04:58,702] multiqc [DEBUG ] Running Python 3.7.7 (default, May 7 2020, 21:25:33) [GCC 7.3.0]
[2020-08-23 20:04:58,702] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS10_1_fastqc.zip
[2020-08-23 20:04:58,702] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS10_2_fastqc.zip
[2020-08-23 20:04:58,702] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS11_1_fastqc.zip
[2020-08-23 20:04:58,702] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS11_2_fastqc.zip
[2020-08-23 20:04:58,702] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS12_1_fastqc.zip
[2020-08-23 20:04:58,702] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS12_2_fastqc.zip
[2020-08-23 20:04:58,702] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS13_1_fastqc.zip
[2020-08-23 20:04:58,703] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS13_2_fastqc.zip
[2020-08-23 20:04:58,703] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS14_1_fastqc.zip
[2020-08-23 20:04:58,703] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS14_2_fastqc.zip
[2020-08-23 20:04:58,703] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS15_1_fastqc.zip
[2020-08-23 20:04:58,703] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS15_2_fastqc.zip
[2020-08-23 20:04:58,703] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS16_1_fastqc.zip
[2020-08-23 20:04:58,703] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS16_2_fastqc.zip
[2020-08-23 20:04:58,703] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS17_1_fastqc.zip
[2020-08-23 20:04:58,704] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS17_2_fastqc.zip
[2020-08-23 20:04:58,704] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS18_1_fastqc.zip
[2020-08-23 20:04:58,704] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS18_2_fastqc.zip
[2020-08-23 20:04:58,704] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS19_1_fastqc.zip
[2020-08-23 20:04:58,704] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS19_2_fastqc.zip
[2020-08-23 20:04:58,704] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS1_1_fastqc.zip
[2020-08-23 20:04:58,704] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS1_2_fastqc.zip
[2020-08-23 20:04:58,704] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS20_1_fastqc.zip
[2020-08-23 20:04:58,705] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS20_2_fastqc.zip
[2020-08-23 20:04:58,705] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS2_1_fastqc.zip
[2020-08-23 20:04:58,705] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS2_2_fastqc.zip
[2020-08-23 20:04:58,705] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS3_1_fastqc.zip
[2020-08-23 20:04:58,705] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS3_2_fastqc.zip
[2020-08-23 20:04:58,705] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS4_1_fastqc.zip
[2020-08-23 20:04:58,705] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS4_2_fastqc.zip
[2020-08-23 20:04:58,705] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS5_1_fastqc.zip
[2020-08-23 20:04:58,705] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS5_2_fastqc.zip
[2020-08-23 20:04:58,706] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS6_1_fastqc.zip
[2020-08-23 20:04:58,706] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS6_2_fastqc.zip
[2020-08-23 20:04:58,706] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS7_1_fastqc.zip
[2020-08-23 20:04:58,706] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS7_2_fastqc.zip
[2020-08-23 20:04:58,706] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS8_1_fastqc.zip
[2020-08-23 20:04:58,706] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS8_2_fastqc.zip
[2020-08-23 20:04:58,706] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS9_1_fastqc.zip
[2020-08-23 20:04:58,706] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/MDS9_2_fastqc.zip
[2020-08-23 20:04:58,707] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/control1_1_fastqc.zip
[2020-08-23 20:04:58,707] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/control1_2_fastqc.zip
[2020-08-23 20:04:58,707] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/control2_1_fastqc.zip
[2020-08-23 20:04:58,707] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/control2_2_fastqc.zip
[2020-08-23 20:04:58,707] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/control3_1_fastqc.zip
[2020-08-23 20:04:58,707] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/control3_2_fastqc.zip
[2020-08-23 20:04:58,707] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/control4_1_fastqc.zip
[2020-08-23 20:04:58,707] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/control4_2_fastqc.zip
[2020-08-23 20:04:58,708] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/control5_1_fastqc.zip
[2020-08-23 20:04:58,708] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/qc/fastqc/control5_2_fastqc.zip
[2020-08-23 20:04:58,708] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS10_Log.final.out
[2020-08-23 20:04:58,708] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS11_Log.final.out
[2020-08-23 20:04:58,708] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS12_Log.final.out
[2020-08-23 20:04:58,708] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS13_Log.final.out
[2020-08-23 20:04:58,708] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS14_Log.final.out
[2020-08-23 20:04:58,708] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS15_Log.final.out
[2020-08-23 20:04:58,709] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS16_Log.final.out
[2020-08-23 20:04:58,709] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS17_Log.final.out
[2020-08-23 20:04:58,709] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS18_Log.final.out
[2020-08-23 20:04:58,709] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS19_Log.final.out
[2020-08-23 20:04:58,709] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS1_Log.final.out
[2020-08-23 20:04:58,709] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS20_Log.final.out
[2020-08-23 20:04:58,709] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS2_Log.final.out
[2020-08-23 20:04:58,709] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS3_Log.final.out
[2020-08-23 20:04:58,709] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS4_Log.final.out
[2020-08-23 20:04:58,709] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS5_corrected_Log.final.out
[2020-08-23 20:04:58,709] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS6_Log.final.out
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS7_Log.final.out
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS8_Log.final.out
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/MDS9_Log.final.out
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/control1_Log.final.out
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/control2_Log.final.out
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/control3_corrected_Log.final.out
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/control4_Log.final.out
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/alignment/STAR/control5_Log.final.out
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS10_quant
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS11_quant
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS12_quant
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS13_quant
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS14_quant
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS15_quant
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS16_quant
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS17_quant
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS18_quant
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS19_quant
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS1_quant
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS20_quant
[2020-08-23 20:04:58,710] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS2_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS3_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS4_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS5_corrected_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS5_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS6_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS7_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS8_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/MDS9_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/control1_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/control2_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/control3_corrected_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/control3_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/control4_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/salmon/control5_quant
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS1
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS10
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS11
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS12
[2020-08-23 20:04:58,711] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS13
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS14
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS15
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS16
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS17
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS18
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS19
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS2
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS20
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS3
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS4
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS5
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS5_corrected
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS6
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS7
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS8
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/MDS9
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/control1
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/control2
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/control3
[2020-08-23 20:04:58,712] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/control3_corrected
[2020-08-23 20:04:58,713] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/control4
[2020-08-23 20:04:58,713] multiqc [INFO ] Searching : /home/bd1/mds-datasets/dataset1/expression/kallisto/control5
[2020-08-23 20:04:58,713] multiqc [INFO ] Only using modules salmon
[2020-08-23 20:04:58,713] multiqc [DEBUG ] Analysing modules: salmon
[2020-08-23 20:04:58,713] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmph3e8vwml
[2020-08-23 20:04:58,792] multiqc [DEBUG ] Ignored 232 search patterns as didn't match running modules.
[2020-08-23 20:05:00,675] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.1
[2020-08-23 20:05:00,702] multiqc.modules.salmon.salmon [INFO ] Found 25 meta reports
[2020-08-23 20:05:00,716] multiqc [INFO ] Compressing plot data
[2020-08-23 20:05:00,722] multiqc [INFO ] Report : dataset1_combined_multiqc.html
[2020-08-23 20:05:00,722] multiqc [INFO ] Data : dataset1_combined_multiqc_data
[2020-08-23 20:05:00,722] multiqc [DEBUG ] Moving data file from '/tmp/tmph3e8vwml/multiqc_data' to '/disk/work/shared/data/MDS/dataset1/qc/multiqc_combined/dataset1_combined_multiqc_data'
[2020-08-23 20:05:00,811] multiqc [INFO ] MultiQC complete
File that triggers the error: Salmon was run with bootstrap option. Salmon directory structure:
├── control1_quant
│ ├── aux_info
│ │ ├── ambig_info.tsv
│ │ ├── bootstrap
│ │ │ ├── bootstraps.gz
│ │ │ └── names.tsv.gz
│ │ ├── exp3_seq.gz
│ │ ├── exp5_seq.gz
│ │ ├── expected_bias.gz
│ │ ├── exp_gc.gz
│ │ ├── fld.gz
│ │ ├── meta_info.json
│ │ ├── obs3_seq.gz
│ │ ├── obs5_seq.gz
│ │ ├── observed_bias_3p.gz
│ │ ├── observed_bias.gz
│ │ └── obs_gc.gz
│ ├── cmd_info.json
│ ├── libParams
│ ├── logs
│ │ └── salmon_quant.log
│ └── quant.sf
MultiQC run details (please complete the following):
- Command used to run MultiQC:
multiqc -n dataset1_combined_multiqc /home/bd1/mds-datasets/dataset1/qc/fastqc/*zip /home/bd1/mds-datasets/dataset1/alignment/STAR/*Log.final.out /home/bd1/mds-datasets/dataset1/expression/salmon/*_quant /home/bd1/mds-datasets/dataset1/expression/kallisto/* -m salmon - MultiQC Version: 1.9
- Operating System: Ubuntu 18.04.5 LTS
- Python Version: Python 3.7.7
- Method of MultiQC installation: conda
Additional context
When running multiqc without specifying -m salmon, there are messages in the log file:
[2020-08-23 20:17:06,830] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:06,831] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:06,831] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:06,832] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:06,832] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:06,832] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:06,832] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:09,491] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:09,492] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:09,512] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:09,512] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:09,512] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:09,513] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:09,513] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:09,513] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:09,513] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:12,142] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:12,143] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:12,163] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:12,164] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:12,164] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:12,164] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:12,164] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:12,164] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:12,164] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:14,790] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
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[2020-08-23 20:17:14,812] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:14,812] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:14,812] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
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[2020-08-23 20:17:17,301] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:17,301] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:17,301] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:17,301] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:17,301] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:17,360] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: ambig_info.tsv
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[2020-08-23 20:17:19,893] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:19,893] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:19,893] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:19,893] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:19,893] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:19,893] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
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[2020-08-23 20:17:22,577] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:22,577] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:22,577] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:22,577] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:22,577] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:25,221] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
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[2020-08-23 20:17:25,242] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:25,242] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:25,242] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:25,243] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:25,243] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:25,243] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:25,243] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:27,869] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:27,870] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:27,889] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:27,890] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:27,890] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:27,890] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:27,890] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:27,890] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:27,890] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:30,512] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:30,512] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:30,532] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:30,533] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:30,533] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:30,533] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:30,533] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:30,533] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:30,533] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:33,179] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:33,180] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:33,200] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:33,201] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:33,201] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:33,201] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:33,201] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:33,201] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:33,201] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:33,261] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:35,767] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:35,768] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:35,789] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:35,790] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:35,790] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:35,790] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:35,790] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:35,790] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:35,790] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:35,848] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:38,351] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:38,352] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:38,372] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:38,373] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:38,373] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:38,373] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:38,373] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:38,373] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:38,373] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:38,428] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:40,812] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:40,813] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:40,833] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:40,834] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:40,834] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:40,834] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:40,834] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:40,834] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:40,834] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:40,893] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:43,407] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:43,408] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:43,428] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:43,429] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:43,429] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:43,429] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:43,429] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:43,429] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:43,429] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:43,484] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:45,864] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:45,864] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:45,885] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:45,886] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:45,886] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:45,886] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:45,886] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:45,886] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:45,886] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:45,944] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:48,471] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:48,472] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:48,501] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:48,502] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:48,502] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:48,502] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:48,502] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:48,502] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:48,503] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:48,561] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:51,077] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:51,078] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:51,098] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:51,099] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:51,099] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:51,099] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:51,099] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:51,099] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:51,099] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:53,567] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:53,568] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:53,587] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:53,588] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:53,588] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:53,588] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:53,588] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:53,588] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:53,588] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:53,646] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:56,150] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:56,151] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:56,171] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:56,172] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:56,172] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:56,172] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:56,172] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:56,172] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:56,173] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:58,655] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:58,656] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:17:58,675] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:58,676] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:58,676] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:58,676] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:58,676] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:58,676] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:17:58,676] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:01,319] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:18:01,320] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:18:01,340] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:01,341] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:01,341] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:01,341] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:01,341] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:01,342] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:01,342] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:03,839] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:18:03,840] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:18:03,860] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:03,861] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:03,861] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:03,861] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:03,861] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:03,861] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:03,861] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:06,460] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:18:06,461] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:18:06,489] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:06,490] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:06,490] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:06,490] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:06,490] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:06,490] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:06,490] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:09,090] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:18:09,091] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:18:09,111] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:09,112] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:09,112] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:09,112] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:09,112] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:09,112] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:09,112] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: ambig_info.tsv
[2020-08-23 20:18:11,575] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: salmon_quant.log
[2020-08-23 20:18:11,576] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: salmon_quant.log
dBenedek
All 15 comments
Hi @dBenedek,
It looks like MultiQC is finding your files:
[2020-08-23 20:05:00,702] multiqc.modules.salmon.salmon [INFO ] Found 25 meta reports
So I'm not quite sure what is happening here. Do you have some example data files that I could run to replicate the issue? Without this I don't think I can help sorry.
Phil
ewels
on 28 Dec 2020
Hi @dBenedek,
It looks like MultiQC is finding your files:
[2020-08-23 20:05:00,702] multiqc.modules.salmon.salmon [INFO ] Found 25 meta reportsSo I'm not quite sure what is happening here. Do you have some example data files that I could run to replicate the issue? Without this I don't think I can help sorry.
Phil
Hi,
Thanks for your answer.
For me it seems that MultiQC 1.9 is looking for the flenDist.txt Salmon output files while I only have fld.gz files (Salmon version 1.2.1 used).
To overcome this problem I simply decompressed the fld.gz files and renamed to flenDist.txt
After this, MultiQC could parse these decompressed Salmon output files too, and the generated html file contains the Salmon length distribution plot as well.
Thank you,
Benedek Dankó
dBenedek
on 30 Dec 2020
ok, good to know - thanks! Is this a change in Salmon that it is only producing the .gz files now or is it something specific to your run?
Phil
ewels
on 3 Jan 2021
Yes, as far as I know this is version specific (1.2.1) producing the .gz file instead of the .txt file with the fragment length distribution data.
dBenedek
on 4 Jan 2021
Ok thanks - I'll take a look. Please can you attach some example files? I know I could gzip them myself, but it's always better to get exact outputs from a tool as minor things can vary.
Phil
ewels
on 12 Jan 2021
Of course, I attached two example files. Both of them are in the corresponding /sample_xy/aux_info/ directories.
So for example /SRR6781218_quantt/aux_info/fld.gz and /SRR6781235_quant/aux_info/fld.gz file paths in my case.
Best,
Benedek
dBenedek
on 12 Jan 2021
🎉1
Great stuff, thanks!
ewels
on 12 Jan 2021
Hmm, I can't unzip these archives - it says that they are empty / just binary dumps. Has something fishy happened with them?
If you could just archive the whole folder for the sample that would be ideal, I'm trying to mimic what we already have for earlier versions: https://github.com/ewels/MultiQC_TestData/tree/master/data/modules/salmon/v0.9.1/DRR016125_quant
Thanks!
Phil
ewels
on 12 Jan 2021
Sorry, I attached wrong files. With these it should be fine:
The whole folders are over ~40 MB, so I can't attach it here.
Interestingly, the libParams folders are empty, but the fld.gz file can be found in the aux_info folder (Slamon v1.2.1). So by decompressing and renaming the .gz file to flenDist.txt and moving it to the libParams folder solves the issue.
dBenedek
on 12 Jan 2021
I'm still just getting a binary file when I gunzip these files: fld: application/octet-stream; charset=binary 🤔
ewels
on 13 Jan 2021
Ah yes, but the fragment length distribution is in the binary file, which can be extracted.
I wrote a Python script to get the fragment length data from the binary file.
This is what I've used to get the flenDist.txt file that can be parsed by MultiQC.
dBenedek
on 13 Jan 2021
ok - I'm getting a little lost with this now..
I checked in with @rob-p (Salmon author) and he said that _"even in the newest versions of salmon, there should always be a flenDist.txt in libParams, if the run completed successfully."_.
I've not had reports of this problem from anyone else, which also makes me suspicious (eg. we use Salmon v1.4.0 in https://github.com/nf-core/rnaseq and it works fine). Could there be something strange going on with your setup that could cause that file to go missing?
Phil
ewels
on 13 Jan 2021
Maybe the reason for the absence of the flenDist.txt output files is that I ran Slamon in alignment-based mode, performing quantification on the BAM alignment files.
The Salmon output file formats documentation states that similarily, the lib_format_counts.json output file is only generated in mapping-based mode.
So the conclusion is that the flenDist.txt file is only generated if Salmon is used in mapping-based mode.
I think this issue can be closed, thank you for your help.
Best,
Benedek
dBenedek
on 14 Jan 2021
ok, that would be a nice explanation - thanks! What I will do is just check that we have some data and not try to generate the plot if none is found. Then at least you won't have an empty graph in the report.
ewels
on 14 Jan 2021
🎉1
Done in be4a5c5..
ewels
on 14 Jan 2021
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