[2017-04-05 15:15:41,213] multiqc [DEBUG ] No MultiQC config found: /opt/local/tubo/env/python3/lib/python3.4/site-packages/multiqc_config.yaml [2017-04-05 15:15:41,213] multiqc [DEBUG ] No MultiQC config found: /home/mk5636/.multiqc_config.yaml [2017-04-05 15:15:41,213] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2017-04-05 15:15:41,214] multiqc [DEBUG ] Command used: /opt/local/tubo/env/python3/bin/multiqc /home/mk5636/fastqc-delivery/HKCHCBCXY/1 [2017-04-05 15:15:41,519] multiqc [INFO ] This is MultiQC v1.0.dev0 [2017-04-05 15:15:41,519] multiqc [DEBUG ] Command : /opt/local/tubo/env/python3/bin/multiqc /home/mk5636/fastqc-delivery/HKCHCBCXY/1 [2017-04-05 15:15:41,519] multiqc [DEBUG ] Working dir : /mnt/gencore/sites/core-fastqc.bio.nyu.edu/html/HKCHCBCXY/1 [2017-04-05 15:15:41,519] multiqc [INFO ] Template : default [2017-04-05 15:15:41,520] multiqc [INFO ] Searching '/home/mk5636/fastqc-delivery/HKCHCBCXY/1' [2017-04-05 15:15:41,521] 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 [2017-04-05 15:15:41,521] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmpz8sd7jil [2017-04-05 15:15:41,893] multiqc.modules.rna_seqc.rna_seqc [DEBUG ] Could not find any RNA-SeQC data in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:41,902] multiqc.modules.custom_content.custom_content [DEBUG ] No custom content found [2017-04-05 15:15:41,916] multiqc.modules.peddy.peddy [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:41,922] multiqc.modules.methylQA.methylQA [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:41,926] multiqc.modules.qualimap.QM_BamQC [DEBUG ] Using default Qualimap thresholds: 1, 5, 10, 30, 50 [2017-04-05 15:15:41,943] multiqc.modules.qualimap.qualimap [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:41,989] multiqc.modules.preseq.preseq [DEBUG ] Could not find any preseq data in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:41,998] multiqc.modules.quast.quast [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,123] multiqc.modules.rseqc.rseqc [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,130] multiqc.modules.busco.busco [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,142] multiqc.modules.goleft_indexcov.goleft_indexcov [DEBUG ] Did not find goleft indexcov outputs in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,173] multiqc.modules.snpeff.snpeff [DEBUG ] Could not find any data in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,206] multiqc.modules.gatk.gatk [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,238] multiqc.modules.htseq.htseq [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,268] multiqc.modules.bcftools.bcftools [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,276] multiqc.modules.featureCounts.feature_counts [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,539] multiqc.modules.picard.picard [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,549] multiqc.modules.prokka.prokka [DEBUG ] Could not find any Prokka data in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,578] multiqc.modules.samblaster.samblaster [DEBUG ] Could not find any data in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,672] multiqc.modules.samtools.samtools [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,702] multiqc.modules.bamtools.bamtools [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,722] multiqc.modules.bismark.bismark [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,728] multiqc.modules.hicup.hicup [DEBUG ] Could not find any HiCUP data in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,737] multiqc.modules.salmon.salmon [DEBUG ] Could not find any Salmon data in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,764] multiqc.modules.kallisto.kallisto [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,940] multiqc.modules.slamdunk.slamdunk [DEBUG ] No slamdunk reports found. [2017-04-05 15:15:42,951] multiqc.modules.star.star [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,958] multiqc.modules.tophat.tophat [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:42,986] multiqc.modules.bowtie2.bowtie2 [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:43,017] multiqc.modules.bowtie1.bowtie1 [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:43,049] multiqc.modules.cutadapt.cutadapt [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:43,081] multiqc.modules.trimmomatic.trimmomatic [DEBUG ] Could not find any Trimmomatic data in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:43,113] multiqc.modules.skewer.skewer [DEBUG ] Could not find any data in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:43,121] multiqc.modules.fastq_screen.fastq_screen [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:43,394] multiqc.modules.fastqc.fastqc [INFO ] Found 12 reports [2017-04-05 15:15:43,552] multiqc.modules.clusterflow.clusterflow [DEBUG ] Could not find any reports in ('/home/mk5636/fastqc-delivery/HKCHCBCXY/1',) [2017-04-05 15:15:43,599] multiqc [INFO ] Report : multiqc_report.html [2017-04-05 15:15:43,600] multiqc [INFO ] Data : multiqc_data [2017-04-05 15:15:43,601] multiqc [DEBUG ] Moving data file from '/tmp/tmpz8sd7jil/multiqc_data/multiqc_general_stats.txt' to '/mnt/gencore/sites/core-fastqc.bio.nyu.edu/html/HKCHCBCXY/1/multiqc_data' [2017-04-05 15:15:43,606] multiqc [DEBUG ] Moving data file from '/tmp/tmpz8sd7jil/multiqc_data/multiqc_fastqc.txt' to '/mnt/gencore/sites/core-fastqc.bio.nyu.edu/html/HKCHCBCXY/1/multiqc_data' [2017-04-05 15:15:43,611] multiqc [DEBUG ] Moving data file from '/tmp/tmpz8sd7jil/multiqc_data/multiqc_sources.txt' to '/mnt/gencore/sites/core-fastqc.bio.nyu.edu/html/HKCHCBCXY/1/multiqc_data' [2017-04-05 15:15:43,798] multiqc [INFO ] MultiQC complete