[2018-04-26 14:25:23,297] multiqc [DEBUG ] No MultiQC config found: /share/apps/python3/lib/python3.5/site-packages/multiqc_config.yaml
[2018-04-26 14:25:23,298] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml
[2018-04-26 14:25:23,298] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml
[2018-04-26 14:25:23,300] multiqc [DEBUG ] Loading config settings from: /home/mk5636/SCRIPTS/Scanner/mqc_config.yaml
[2018-04-26 14:25:23,300] multiqc [DEBUG ] New config 'custom_content': {'order': ['run_stats', 'demux_report', 'demux_report-1', 'demux_report-2', 'demux_report-3', 'demux_report-4', 'demux_report-5', 'demux_report-6', 'demux_report-7', 'demux_report-8']}
[2018-04-26 14:25:23,300] multiqc [DEBUG ] Command used: /share/apps/python3/bin/multiqc -c /home/mk5636/SCRIPTS/Scanner/mqc_config.yaml .
[2018-04-26 14:25:24,161] multiqc [WARNING] MultiQC Version v1.5 now available!
[2018-04-26 14:25:24,162] multiqc [INFO ] This is MultiQC v1.0.dev0
[2018-04-26 14:25:24,162] multiqc [DEBUG ] Command : /share/apps/python3/bin/multiqc -c /home/mk5636/SCRIPTS/Scanner/mqc_config.yaml .
[2018-04-26 14:25:24,162] multiqc [DEBUG ] Working dir : /mnt/gencore/sites/core-fastqc.bio.nyu.edu/html/H7GKLBCX2/1
[2018-04-26 14:25:24,162] multiqc [INFO ] Template : default
[2018-04-26 14:25:24,163] multiqc [INFO ] Searching '.'
[2018-04-26 14:25:24,163] multiqc [DEBUG ] Analysing modules: custom_content, peddy, methylQA, qualimap, preseq, quast, rna_seqc, rseqc, busco, goleft_indexcov, snpeff, gatk, htseq, bcftools, featureCounts, picard, prokka, samblaster, samtools, bamtools, bismark, hicup, salmon, kallisto, slamdunk, star, tophat, bowtie2, bowtie1, adapterRemoval, cutadapt, trimmomatic, skewer, sortmerna, fastq_screen, fastqc, clusterflow
[2018-04-26 14:25:24,163] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmpd_8k4ndb
[2018-04-26 14:25:26,137] multiqc.modules.custom_content.custom_content [INFO ] demux_report-1: Found 6 samples (table)
[2018-04-26 14:25:26,141] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table)
[2018-04-26 14:25:26,153] multiqc.modules.peddy.peddy [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,159] multiqc.modules.methylQA.methylQA [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,167] multiqc.modules.qualimap.QM_BamQC [DEBUG ] Using default Qualimap thresholds: 1, 5, 10, 30, 50
[2018-04-26 14:25:26,167] multiqc.modules.qualimap.qualimap [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,172] multiqc.modules.preseq.preseq [DEBUG ] Could not find any preseq data in ('.',)
[2018-04-26 14:25:26,180] multiqc.modules.quast.quast [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,186] multiqc.modules.rna_seqc.rna_seqc [DEBUG ] Could not find any RNA-SeQC data in ('.',)
[2018-04-26 14:25:26,201] multiqc.modules.rseqc.rseqc [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,215] multiqc.modules.busco.busco [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,221] multiqc.modules.goleft_indexcov.goleft_indexcov [DEBUG ] Did not find goleft indexcov outputs in ('.',)
[2018-04-26 14:25:26,226] multiqc.modules.snpeff.snpeff [DEBUG ] Could not find any data in ('.',)
[2018-04-26 14:25:26,231] multiqc.modules.gatk.gatk [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,237] multiqc.modules.htseq.htseq [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,242] multiqc.modules.bcftools.bcftools [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,247] multiqc.modules.featureCounts.feature_counts [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,257] multiqc.modules.picard.picard [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,261] multiqc.modules.prokka.prokka [DEBUG ] Could not find any Prokka data in ('.',)
[2018-04-26 14:25:26,266] multiqc.modules.samblaster.samblaster [DEBUG ] Could not find any data in ('.',)
[2018-04-26 14:25:26,273] multiqc.modules.samtools.samtools [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,278] multiqc.modules.bamtools.bamtools [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,283] multiqc.modules.bismark.bismark [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,288] multiqc.modules.hicup.hicup [DEBUG ] Could not find any HiCUP data in ('.',)
[2018-04-26 14:25:26,293] multiqc.modules.salmon.salmon [DEBUG ] Could not find any Salmon data in ('.',)
[2018-04-26 14:25:26,297] multiqc.modules.kallisto.kallisto [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,302] multiqc.modules.slamdunk.slamdunk [DEBUG ] No slamdunk reports found.
[2018-04-26 14:25:26,306] multiqc.modules.star.star [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,311] multiqc.modules.tophat.tophat [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,315] multiqc.modules.bowtie2.bowtie2 [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,320] multiqc.modules.bowtie1.bowtie1 [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,324] multiqc.modules.adapterRemoval.adapterRemoval [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,329] multiqc.modules.cutadapt.cutadapt [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,333] multiqc.modules.trimmomatic.trimmomatic [DEBUG ] Could not find any Trimmomatic data in ('.',)
[2018-04-26 14:25:26,337] multiqc.modules.skewer.skewer [DEBUG ] Could not find any data in ('.',)
[2018-04-26 14:25:26,342] multiqc.modules.sortmerna.sortmerna [DEBUG ] Could not find any SortMeRNA data in ('.',)
[2018-04-26 14:25:26,346] multiqc.modules.fastq_screen.fastq_screen [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,714] multiqc.modules.fastqc.fastqc [INFO ] Found 12 reports
[2018-04-26 14:25:26,895] multiqc.modules.clusterflow.clusterflow [DEBUG ] Could not find any reports in ('.',)
[2018-04-26 14:25:26,918] multiqc [INFO ] Compressing plot data
[2018-04-26 14:25:27,192] multiqc [INFO ] Report : multiqc_report.html
[2018-04-26 14:25:27,240] multiqc [INFO ] Data : multiqc_data
[2018-04-26 14:25:27,240] multiqc [DEBUG ] Moving data file from '/tmp/tmpd_8k4ndb/multiqc_data/multiqc_general_stats.txt' to '/mnt/gencore/sites/core-fastqc.bio.nyu.edu/html/H7GKLBCX2/1/multiqc_data'
[2018-04-26 14:25:27,277] multiqc [DEBUG ] Moving data file from '/tmp/tmpd_8k4ndb/multiqc_data/multiqc_sources.txt' to '/mnt/gencore/sites/core-fastqc.bio.nyu.edu/html/H7GKLBCX2/1/multiqc_data'
[2018-04-26 14:25:27,281] multiqc [DEBUG ] Moving data file from '/tmp/tmpd_8k4ndb/multiqc_data/multiqc_fastqc.txt' to '/mnt/gencore/sites/core-fastqc.bio.nyu.edu/html/H7GKLBCX2/1/multiqc_data'
[2018-04-26 14:25:27,487] multiqc [INFO ] MultiQC complete