Job ID = 6509068 SRX = SRX645111 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-26T15:28:52 prefetch.2.10.7: 1) Downloading 'SRR1505710'... 2020-06-26T15:28:52 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T15:51:11 prefetch.2.10.7: HTTPS download succeed 2020-06-26T15:51:11 prefetch.2.10.7: 1) 'SRR1505710' was downloaded successfully Read 158434566 spots for SRR1505710/SRR1505710.sra Written 158434566 spots for SRR1505710/SRR1505710.sra 2020-06-26T16:07:50 prefetch.2.10.7: 1) Downloading 'SRR1505711'... 2020-06-26T16:07:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T16:35:18 prefetch.2.10.7: HTTPS download succeed 2020-06-26T16:35:18 prefetch.2.10.7: 1) 'SRR1505711' was downloaded successfully Read 222238708 spots for SRR1505711/SRR1505711.sra Written 222238708 spots for SRR1505711/SRR1505711.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 01:07:41 380673274 reads; of these: 380673274 (100.00%) were unpaired; of these: 379984425 (99.82%) aligned 0 times 465429 (0.12%) aligned exactly 1 time 223420 (0.06%) aligned >1 times 0.18% overall alignment rate Time searching: 01:07:41 Overall time: 01:07:41 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_rmdupse_core] 214506 / 688849 = 0.3114 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 27 Jun 2020 03:06:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 27 Jun 2020 03:06:54: #1 read tag files... INFO @ Sat, 27 Jun 2020 03:06:54: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 03:06:58: #1 tag size is determined as 100 bps INFO @ Sat, 27 Jun 2020 03:06:58: #1 tag size = 100 INFO @ Sat, 27 Jun 2020 03:06:58: #1 total tags in treatment: 474343 INFO @ Sat, 27 Jun 2020 03:06:58: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 03:06:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 03:06:58: #1 tags after filtering in treatment: 473782 INFO @ Sat, 27 Jun 2020 03:06:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 03:06:58: #1 finished! INFO @ Sat, 27 Jun 2020 03:06:58: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 03:06:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 03:06:58: #2 number of paired peaks: 1156 INFO @ Sat, 27 Jun 2020 03:06:58: start model_add_line... INFO @ Sat, 27 Jun 2020 03:06:58: start X-correlation... INFO @ Sat, 27 Jun 2020 03:06:58: end of X-cor INFO @ Sat, 27 Jun 2020 03:06:58: #2 finished! INFO @ Sat, 27 Jun 2020 03:06:58: #2 predicted fragment length is 94 bps INFO @ Sat, 27 Jun 2020 03:06:58: #2 alternative fragment length(s) may be 94,541 bps INFO @ Sat, 27 Jun 2020 03:06:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.05_model.r WARNING @ Sat, 27 Jun 2020 03:06:58: #2 Since the d (94) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 27 Jun 2020 03:06:58: #2 You may need to consider one of the other alternative d(s): 94,541 WARNING @ Sat, 27 Jun 2020 03:06:58: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 27 Jun 2020 03:06:58: #3 Call peaks... INFO @ Sat, 27 Jun 2020 03:06:58: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 03:07:00: #3 Call peaks for each chromosome... INFO @ Sat, 27 Jun 2020 03:07:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.05_peaks.xls INFO @ Sat, 27 Jun 2020 03:07:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.05_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 03:07:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.05_summits.bed INFO @ Sat, 27 Jun 2020 03:07:00: Done! pass1 - making usageList (126 chroms): 1 millis pass2 - checking and writing primary data (326 records, 4 fields): 6 millis CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 27 Jun 2020 03:07:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 27 Jun 2020 03:07:24: #1 read tag files... INFO @ Sat, 27 Jun 2020 03:07:24: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 03:07:28: #1 tag size is determined as 100 bps INFO @ Sat, 27 Jun 2020 03:07:28: #1 tag size = 100 INFO @ Sat, 27 Jun 2020 03:07:28: #1 total tags in treatment: 474343 INFO @ Sat, 27 Jun 2020 03:07:28: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 03:07:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 03:07:28: #1 tags after filtering in treatment: 473782 INFO @ Sat, 27 Jun 2020 03:07:28: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 03:07:28: #1 finished! INFO @ Sat, 27 Jun 2020 03:07:28: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 03:07:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 03:07:28: #2 number of paired peaks: 1156 INFO @ Sat, 27 Jun 2020 03:07:28: start model_add_line... INFO @ Sat, 27 Jun 2020 03:07:28: start X-correlation... INFO @ Sat, 27 Jun 2020 03:07:28: end of X-cor INFO @ Sat, 27 Jun 2020 03:07:28: #2 finished! INFO @ Sat, 27 Jun 2020 03:07:28: #2 predicted fragment length is 94 bps INFO @ Sat, 27 Jun 2020 03:07:28: #2 alternative fragment length(s) may be 94,541 bps INFO @ Sat, 27 Jun 2020 03:07:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.10_model.r WARNING @ Sat, 27 Jun 2020 03:07:28: #2 Since the d (94) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 27 Jun 2020 03:07:28: #2 You may need to consider one of the other alternative d(s): 94,541 WARNING @ Sat, 27 Jun 2020 03:07:28: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 27 Jun 2020 03:07:28: #3 Call peaks... INFO @ Sat, 27 Jun 2020 03:07:28: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 03:07:30: #3 Call peaks for each chromosome... INFO @ Sat, 27 Jun 2020 03:07:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.10_peaks.xls INFO @ Sat, 27 Jun 2020 03:07:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.10_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 03:07:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.10_summits.bed INFO @ Sat, 27 Jun 2020 03:07:30: Done! pass1 - making usageList (89 chroms): 0 millis pass2 - checking and writing primary data (215 records, 4 fields): 4 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 27 Jun 2020 03:07:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 27 Jun 2020 03:07:54: #1 read tag files... INFO @ Sat, 27 Jun 2020 03:07:54: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Sat, 27 Jun 2020 03:07:58: #1 tag size is determined as 100 bps INFO @ Sat, 27 Jun 2020 03:07:58: #1 tag size = 100 INFO @ Sat, 27 Jun 2020 03:07:58: #1 total tags in treatment: 474343 INFO @ Sat, 27 Jun 2020 03:07:58: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 03:07:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 03:07:58: #1 tags after filtering in treatment: 473782 INFO @ Sat, 27 Jun 2020 03:07:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 03:07:58: #1 finished! INFO @ Sat, 27 Jun 2020 03:07:58: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 03:07:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 03:07:58: #2 number of paired peaks: 1156 INFO @ Sat, 27 Jun 2020 03:07:58: start model_add_line... INFO @ Sat, 27 Jun 2020 03:07:58: start X-correlation... INFO @ Sat, 27 Jun 2020 03:07:58: end of X-cor INFO @ Sat, 27 Jun 2020 03:07:58: #2 finished! INFO @ Sat, 27 Jun 2020 03:07:58: #2 predicted fragment length is 94 bps INFO @ Sat, 27 Jun 2020 03:07:58: #2 alternative fragment length(s) may be 94,541 bps INFO @ Sat, 27 Jun 2020 03:07:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.20_model.r WARNING @ Sat, 27 Jun 2020 03:07:58: #2 Since the d (94) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 27 Jun 2020 03:07:58: #2 You may need to consider one of the other alternative d(s): 94,541 WARNING @ Sat, 27 Jun 2020 03:07:58: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 27 Jun 2020 03:07:58: #3 Call peaks... INFO @ Sat, 27 Jun 2020 03:07:58: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 03:08:00: #3 Call peaks for each chromosome... INFO @ Sat, 27 Jun 2020 03:08:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.20_peaks.xls INFO @ Sat, 27 Jun 2020 03:08:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.20_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 03:08:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX645111/SRX645111.20_summits.bed INFO @ Sat, 27 Jun 2020 03:08:00: Done! pass1 - making usageList (65 chroms): 1 millis pass2 - checking and writing primary data (134 records, 4 fields): 4 millis CompletedMACS2peakCalling