[2020-03-13 12:34:42,481] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/20170330/intel/lib/python2.7/site-packages/multiqc-1.0.dev0-py2.7.egg/multiqc_config.yaml [2020-03-13 12:34:42,481] multiqc [DEBUG ] No MultiQC config found: /home/mk5636/.multiqc_config.yaml [2020-03-13 12:34:42,489] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2020-03-13 12:34:42,501] multiqc [DEBUG ] Loading config settings from: /home/mk5636/SCRIPTS/hpcpipe/mqc_config.yaml [2020-03-13 12:34:42,501] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2020-03-13 12:34:42,501] multiqc [DEBUG ] Command used: /share/apps/multiqc/20170330/intel/bin/multiqc -f -c /home/mk5636/SCRIPTS/hpcpipe/mqc_config.yaml /beegfs/mk5636/logs/html/H5GFMAFX2/merged [2020-03-13 12:34:42,501] multiqc [DEBUG ] Could not connect to multiqc.info for version check [2020-03-13 12:34:42,501] multiqc [INFO ] This is MultiQC v1.0.dev0 [2020-03-13 12:34:42,501] multiqc [DEBUG ] Command : /share/apps/multiqc/20170330/intel/bin/multiqc -f -c /home/mk5636/SCRIPTS/hpcpipe/mqc_config.yaml /beegfs/mk5636/logs/html/H5GFMAFX2/merged [2020-03-13 12:34:42,501] multiqc [DEBUG ] Working dir : /beegfs/mk5636/logs/html/H5GFMAFX2/merged [2020-03-13 12:34:42,502] multiqc [INFO ] Template : default [2020-03-13 12:34:42,502] multiqc [DEBUG ] Running in --force mode, will overwrite any existing reports. [2020-03-13 12:34:42,502] multiqc [INFO ] Searching '/beegfs/mk5636/logs/html/H5GFMAFX2/merged' [2020-03-13 12:34:42,502] multiqc [DEBUG ] Analysing modules: rna_seqc, custom_content, peddy, methylQA, qualimap, preseq, quast, rseqc, busco, goleft_indexcov, snpeff, gatk, htseq, bcftools, featureCounts, picard, prokka, samblaster, samtools, bamtools, bismark, hicup, salmon, kallisto, slamdunk, star, tophat, bowtie2, bowtie1, cutadapt, trimmomatic, skewer, fastq_screen, fastqc, clusterflow [2020-03-13 12:34:42,502] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-8203328/tmp6EvrDT [2020-03-13 12:34:44,175] multiqc.modules.rna_seqc.rna_seqc [DEBUG ] Could not find any RNA-SeQC data in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:44,207] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2020-03-13 12:34:44,342] multiqc.modules.custom_content.custom_content [INFO ] demux_report: Found 97 samples (table) [2020-03-13 12:34:44,343] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2020-03-13 12:34:44,372] multiqc.modules.peddy.peddy [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:44,385] multiqc.modules.methylQA.methylQA [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:44,392] multiqc.modules.qualimap.QM_BamQC [DEBUG ] Using default Qualimap thresholds: 1, 5, 10, 30, 50 [2020-03-13 12:34:44,427] multiqc.modules.qualimap.qualimap [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:44,734] multiqc.modules.preseq.preseq [DEBUG ] Could not find any preseq data in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:44,747] multiqc.modules.quast.quast [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:45,263] multiqc.modules.rseqc.rseqc [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:45,276] multiqc.modules.busco.busco [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:45,294] multiqc.modules.goleft_indexcov.goleft_indexcov [DEBUG ] Did not find goleft indexcov outputs in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:45,796] multiqc.modules.snpeff.snpeff [DEBUG ] Could not find any data in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:46,261] multiqc.modules.gatk.gatk [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:46,478] multiqc.modules.htseq.htseq [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:46,652] multiqc.modules.bcftools.bcftools [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:46,664] multiqc.modules.featureCounts.feature_counts [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:48,384] multiqc.modules.picard.picard [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:48,399] multiqc.modules.prokka.prokka [DEBUG ] Could not find any Prokka data in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:48,553] multiqc.modules.samblaster.samblaster [DEBUG ] Could not find any data in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:49,736] multiqc.modules.samtools.samtools [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:49,816] multiqc.modules.bamtools.bamtools [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:49,852] multiqc.modules.bismark.bismark [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:49,864] multiqc.modules.hicup.hicup [DEBUG ] Could not find any HiCUP data in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:49,883] multiqc.modules.salmon.salmon [DEBUG ] Could not find any Salmon data in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:49,938] multiqc.modules.kallisto.kallisto [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:51,408] multiqc.modules.slamdunk.slamdunk [DEBUG ] No slamdunk reports found. [2020-03-13 12:34:51,427] multiqc.modules.star.star [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:51,440] multiqc.modules.tophat.tophat [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:51,495] multiqc.modules.bowtie2.bowtie2 [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:52,383] multiqc.modules.bowtie1.bowtie1 [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:52,546] multiqc.modules.cutadapt.cutadapt [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:52,705] multiqc.modules.trimmomatic.trimmomatic [DEBUG ] Could not find any Trimmomatic data in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:52,849] multiqc.modules.skewer.skewer [DEBUG ] Could not find any data in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:52,862] multiqc.modules.fastq_screen.fastq_screen [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:52,876] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S10_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,877] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,878] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S6_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,878] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,879] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S13_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,879] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,880] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S9_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,880] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,881] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB9_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,881] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,882] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S5_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,882] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,883] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S18_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,883] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,884] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S5_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,885] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,886] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S9_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,886] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,887] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S13_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,887] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,888] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S22_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,888] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,889] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S5_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,889] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,890] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB23_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,890] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,891] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB31_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,891] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,892] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S21_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,892] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,893] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S9_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,894] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,895] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_undetermined_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,895] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,896] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB26_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,896] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,897] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_Mirella3_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,897] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,898] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_Plasmid_control_PR8PB2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,898] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,899] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S9_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,899] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,900] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S18_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,900] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,902] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_Lib_prep_NC_water_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,902] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,903] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S17_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,903] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,904] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_Mirella2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,904] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,905] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S12_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,905] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,906] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S14_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,906] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,907] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB30_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,907] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,908] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S11_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,909] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,910] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S8_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,910] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,911] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB21_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,911] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,912] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S10_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,912] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,913] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB15_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,913] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,914] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S19_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,914] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,915] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB29_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,915] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,916] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S8_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,917] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,918] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB25_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,918] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,919] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S7_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,919] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,920] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB10_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,920] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,921] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S14_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,921] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,922] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S13_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,922] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,923] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S8_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,923] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,924] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S4_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,924] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,925] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S6_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,925] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,927] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB27_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,927] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,928] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_No_index_control_water_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,928] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,929] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB16_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,929] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,930] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB20_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,930] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,931] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S11_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,931] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,932] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_Mirella5_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,932] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,933] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_Mirella1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,933] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,934] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S6_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,934] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,935] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB8_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,936] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,937] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S17_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,937] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,938] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S4_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,938] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,939] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S10_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,939] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,940] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB6_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,940] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,941] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB7_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,941] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,942] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S20_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,942] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,943] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB28_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,943] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,944] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S8_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,945] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,946] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S13_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,946] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,947] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_AHA5_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,947] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,948] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB24_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,948] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,949] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S12_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,949] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,950] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_Mirella6_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,950] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,951] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB19_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,951] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,952] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S11_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,952] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,953] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S11_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,953] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,955] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB17_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,955] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,956] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB12_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,956] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,957] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S6_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,957] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,958] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB22_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,958] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,959] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S21_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,959] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,960] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S12_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,960] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,961] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S12_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,961] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,962] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S20_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,962] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,964] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB14_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,964] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,965] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S4_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,965] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,966] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S7_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,966] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,967] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S7_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,967] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,968] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S14_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,968] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,969] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S19_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,969] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,970] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S3_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,970] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,971] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S22_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,971] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,972] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_Mirella4_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,972] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,973] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB5_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,974] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,975] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S5_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,975] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,976] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB4_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,976] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,977] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B2S10_rep2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,977] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,978] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB11_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,978] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,979] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB3_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,979] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,980] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_B1S7_rep1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,980] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,981] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB13_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,981] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,982] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB1_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,983] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,984] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB2_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,984] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,985] multiqc.modules.fastqc.fastqc [WARNING] Couldn't read 'H5GFMAFX2_n01_DARPA_FLUB18_fastqc.zip' - Bad zip file [2020-03-13 12:34:52,985] multiqc.modules.fastqc.fastqc [DEBUG ] Bad zip file error: File is not a zip file [2020-03-13 12:34:52,985] multiqc.modules.fastqc.fastqc [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:53,005] multiqc.modules.clusterflow.clusterflow [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/H5GFMAFX2/merged',) [2020-03-13 12:34:53,005] multiqc [INFO ] Report : multiqc_report.html [2020-03-13 12:34:53,007] multiqc [INFO ] Data : multiqc_data [2020-03-13 12:34:53,007] multiqc [DEBUG ] Moving data file from '/state/partition1/job-8203328/tmp6EvrDT/multiqc_data/multiqc_sources.txt' to '/beegfs/mk5636/logs/html/H5GFMAFX2/merged/multiqc_data' [2020-03-13 12:34:53,207] multiqc [INFO ] MultiQC complete