view test-data/log_fastqc.txt @ 14:784165ccd3c1 draft

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author engineson
date Fri, 07 Jul 2017 08:00:39 -0400
parents c503e1c1fbad
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[2017-05-25 01:09:17,435] multiqc                                            [DEBUG  ]  No MultiQC config found: /home/dpryan/miniconda2/lib/python2.7/site-packages/multiqc-1.0-py2.7.egg/multiqc_config.yaml
[2017-05-25 01:09:17,435] multiqc                                            [DEBUG  ]  No MultiQC config found: /home/dpryan/.multiqc_config.yaml
[2017-05-25 01:09:17,435] multiqc                                            [DEBUG  ]  No MultiQC config found: multiqc_config.yaml
[2017-05-25 01:09:17,435] multiqc                                            [DEBUG  ]  Command used: /home/dpryan/miniconda2/bin/multiqc multiqc_WDir
[2017-05-25 01:09:17,435] multiqc                                            [DEBUG  ]  Could not connect to multiqc.info for version check
[2017-05-25 01:09:17,435] multiqc                                            [INFO   ]  This is MultiQC v1.0
[2017-05-25 01:09:17,435] multiqc                                            [DEBUG  ]  Command     : /home/dpryan/miniconda2/bin/multiqc multiqc_WDir
[2017-05-25 01:09:17,435] multiqc                                            [DEBUG  ]  Working dir : /tmp/tmptvpHhR/job_working_directory/000/2/working
[2017-05-25 01:09:17,435] multiqc                                            [INFO   ]  Template    : default
[2017-05-25 01:09:17,436] multiqc                                            [INFO   ]  Searching 'multiqc_WDir'
[2017-05-25 01:09:17,436] 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
[2017-05-25 01:09:17,436] multiqc                                            [DEBUG  ]  Using temporary directory for creating report: /tmp/tmpExYq9v
[2017-05-25 01:09:17,570] multiqc.modules.custom_content.custom_content      [DEBUG  ]  No custom content found
[2017-05-25 01:09:17,573] multiqc.modules.peddy.peddy                        [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,576] multiqc.modules.methylQA.methylQA                  [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,578] multiqc.modules.qualimap.QM_BamQC                  [DEBUG  ]  Using default Qualimap thresholds: 1, 5, 10, 30, 50
[2017-05-25 01:09:17,579] multiqc.modules.qualimap.qualimap                  [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,581] multiqc.modules.preseq.preseq                      [DEBUG  ]  Could not find any preseq data in ('multiqc_WDir',)
[2017-05-25 01:09:17,584] multiqc.modules.quast.quast                        [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,586] multiqc.modules.rna_seqc.rna_seqc                  [DEBUG  ]  Could not find any RNA-SeQC data in ('multiqc_WDir',)
[2017-05-25 01:09:17,589] multiqc.modules.rseqc.rseqc                        [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,591] multiqc.modules.busco.busco                        [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,594] multiqc.modules.goleft_indexcov.goleft_indexcov    [DEBUG  ]  Did not find goleft indexcov outputs in ('multiqc_WDir',)
[2017-05-25 01:09:17,596] multiqc.modules.snpeff.snpeff                      [DEBUG  ]  Could not find any data in ('multiqc_WDir',)
[2017-05-25 01:09:17,598] multiqc.modules.gatk.gatk                          [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,601] multiqc.modules.htseq.htseq                        [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,603] multiqc.modules.bcftools.bcftools                  [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,606] multiqc.modules.featureCounts.feature_counts       [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,609] multiqc.modules.picard.picard                      [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,611] multiqc.modules.prokka.prokka                      [DEBUG  ]  Could not find any Prokka data in ('multiqc_WDir',)
[2017-05-25 01:09:17,614] multiqc.modules.samblaster.samblaster              [DEBUG  ]  Could not find any data in ('multiqc_WDir',)
[2017-05-25 01:09:17,617] multiqc.modules.samtools.samtools                  [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,619] multiqc.modules.bamtools.bamtools                  [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,621] multiqc.modules.bismark.bismark                    [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,624] multiqc.modules.hicup.hicup                        [DEBUG  ]  Could not find any HiCUP data in ('multiqc_WDir',)
[2017-05-25 01:09:17,626] multiqc.modules.salmon.salmon                      [DEBUG  ]  Could not find any Salmon data in ('multiqc_WDir',)
[2017-05-25 01:09:17,629] multiqc.modules.kallisto.kallisto                  [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,631] multiqc.modules.slamdunk.slamdunk                  [DEBUG  ]  No slamdunk reports found.
[2017-05-25 01:09:17,633] multiqc.modules.star.star                          [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,636] multiqc.modules.tophat.tophat                      [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,638] multiqc.modules.bowtie2.bowtie2                    [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,641] multiqc.modules.bowtie1.bowtie1                    [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,643] multiqc.modules.adapterRemoval.adapterRemoval      [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,645] multiqc.modules.cutadapt.cutadapt                  [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,648] multiqc.modules.trimmomatic.trimmomatic            [DEBUG  ]  Could not find any Trimmomatic data in ('multiqc_WDir',)
[2017-05-25 01:09:17,650] multiqc.modules.skewer.skewer                      [DEBUG  ]  Could not find any data in ('multiqc_WDir',)
[2017-05-25 01:09:17,652] multiqc.modules.sortmerna.sortmerna                [DEBUG  ]  Could not find any SortMeRNA data in ('multiqc_WDir',)
[2017-05-25 01:09:17,655] multiqc.modules.fastq_screen.fastq_screen          [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,694] multiqc.modules.fastqc.fastqc                      [INFO   ]  Found 1 reports
[2017-05-25 01:09:17,748] multiqc.modules.clusterflow.clusterflow            [DEBUG  ]  Could not find any reports in ('multiqc_WDir',)
[2017-05-25 01:09:17,750] multiqc                                            [INFO   ]  Compressing plot data
[2017-05-25 01:09:17,802] multiqc                                            [INFO   ]  Report      : multiqc_report.html
[2017-05-25 01:09:17,802] multiqc                                            [INFO   ]  Data        : multiqc_data
[2017-05-25 01:09:17,802] multiqc                                            [DEBUG  ]  Moving data file from '/tmp/tmpExYq9v/multiqc_data/multiqc_general_stats.txt' to '/tmp/tmptvpHhR/job_working_directory/000/2/working/multiqc_data'
[2017-05-25 01:09:17,803] multiqc                                            [DEBUG  ]  Moving data file from '/tmp/tmpExYq9v/multiqc_data/multiqc_fastqc.txt' to '/tmp/tmptvpHhR/job_working_directory/000/2/working/multiqc_data'
[2017-05-25 01:09:17,803] multiqc                                            [DEBUG  ]  Moving data file from '/tmp/tmpExYq9v/multiqc_data/multiqc_sources.txt' to '/tmp/tmptvpHhR/job_working_directory/000/2/working/multiqc_data'
[2017-05-25 01:09:17,900] multiqc                                            [INFO   ]  MultiQC complete