Job ID = 12265302 SRX = SRX5010761 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 32482773 spots for SRR8191186/SRR8191186.sra Written 32482773 spots for SRR8191186/SRR8191186.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265465 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:10:57 32482773 reads; of these: 32482773 (100.00%) were unpaired; of these: 1070061 (3.29%) aligned 0 times 19344709 (59.55%) aligned exactly 1 time 12068003 (37.15%) aligned >1 times 96.71% overall alignment rate Time searching: 00:10:57 Overall time: 00:10:57 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 16222716 / 31412712 = 0.5164 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:46:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.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, 03 Apr 2021 06:46:08: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:46:08: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:46:13: 1000000 INFO @ Sat, 03 Apr 2021 06:46:18: 2000000 INFO @ Sat, 03 Apr 2021 06:46:22: 3000000 INFO @ Sat, 03 Apr 2021 06:46:27: 4000000 INFO @ Sat, 03 Apr 2021 06:46:32: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:46:37: 6000000 INFO @ Sat, 03 Apr 2021 06:46:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.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, 03 Apr 2021 06:46:38: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:46:38: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:46:42: 7000000 INFO @ Sat, 03 Apr 2021 06:46:44: 1000000 INFO @ Sat, 03 Apr 2021 06:46:47: 8000000 INFO @ Sat, 03 Apr 2021 06:46:50: 2000000 INFO @ Sat, 03 Apr 2021 06:46:52: 9000000 INFO @ Sat, 03 Apr 2021 06:46:55: 3000000 INFO @ Sat, 03 Apr 2021 06:46:57: 10000000 INFO @ Sat, 03 Apr 2021 06:47:01: 4000000 INFO @ Sat, 03 Apr 2021 06:47:02: 11000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:47:07: 5000000 INFO @ Sat, 03 Apr 2021 06:47:07: 12000000 INFO @ Sat, 03 Apr 2021 06:47:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.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, 03 Apr 2021 06:47:08: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:47:08: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:47:13: 13000000 INFO @ Sat, 03 Apr 2021 06:47:13: 1000000 INFO @ Sat, 03 Apr 2021 06:47:13: 6000000 INFO @ Sat, 03 Apr 2021 06:47:18: 14000000 INFO @ Sat, 03 Apr 2021 06:47:18: 2000000 INFO @ Sat, 03 Apr 2021 06:47:19: 7000000 INFO @ Sat, 03 Apr 2021 06:47:23: 15000000 INFO @ Sat, 03 Apr 2021 06:47:23: 3000000 INFO @ Sat, 03 Apr 2021 06:47:24: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:47:24: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:47:24: #1 total tags in treatment: 15189996 INFO @ Sat, 03 Apr 2021 06:47:24: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:47:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:47:25: #1 tags after filtering in treatment: 15189996 INFO @ Sat, 03 Apr 2021 06:47:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:47:25: #1 finished! INFO @ Sat, 03 Apr 2021 06:47:25: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:47:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:47:25: 8000000 INFO @ Sat, 03 Apr 2021 06:47:26: #2 number of paired peaks: 551 WARNING @ Sat, 03 Apr 2021 06:47:26: Fewer paired peaks (551) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 551 pairs to build model! INFO @ Sat, 03 Apr 2021 06:47:26: start model_add_line... INFO @ Sat, 03 Apr 2021 06:47:26: start X-correlation... INFO @ Sat, 03 Apr 2021 06:47:26: end of X-cor INFO @ Sat, 03 Apr 2021 06:47:26: #2 finished! INFO @ Sat, 03 Apr 2021 06:47:26: #2 predicted fragment length is 74 bps INFO @ Sat, 03 Apr 2021 06:47:26: #2 alternative fragment length(s) may be 74 bps INFO @ Sat, 03 Apr 2021 06:47:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.05_model.r WARNING @ Sat, 03 Apr 2021 06:47:26: #2 Since the d (74) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:47:26: #2 You may need to consider one of the other alternative d(s): 74 WARNING @ Sat, 03 Apr 2021 06:47:26: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:47:26: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:47:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:47:28: 4000000 INFO @ Sat, 03 Apr 2021 06:47:31: 9000000 INFO @ Sat, 03 Apr 2021 06:47:33: 5000000 INFO @ Sat, 03 Apr 2021 06:47:37: 10000000 INFO @ Sat, 03 Apr 2021 06:47:39: 6000000 INFO @ Sat, 03 Apr 2021 06:47:43: 11000000 INFO @ Sat, 03 Apr 2021 06:47:44: 7000000 INFO @ Sat, 03 Apr 2021 06:47:49: 8000000 INFO @ Sat, 03 Apr 2021 06:47:49: 12000000 INFO @ Sat, 03 Apr 2021 06:47:54: 9000000 INFO @ Sat, 03 Apr 2021 06:47:55: 13000000 INFO @ Sat, 03 Apr 2021 06:47:59: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:47:59: 10000000 INFO @ Sat, 03 Apr 2021 06:48:01: 14000000 INFO @ Sat, 03 Apr 2021 06:48:04: 11000000 INFO @ Sat, 03 Apr 2021 06:48:07: 15000000 INFO @ Sat, 03 Apr 2021 06:48:08: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:48:08: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:48:08: #1 total tags in treatment: 15189996 INFO @ Sat, 03 Apr 2021 06:48:08: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:48:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:48:08: #1 tags after filtering in treatment: 15189996 INFO @ Sat, 03 Apr 2021 06:48:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:48:08: #1 finished! INFO @ Sat, 03 Apr 2021 06:48:08: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:48:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:48:09: #2 number of paired peaks: 551 WARNING @ Sat, 03 Apr 2021 06:48:09: Fewer paired peaks (551) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 551 pairs to build model! INFO @ Sat, 03 Apr 2021 06:48:09: start model_add_line... INFO @ Sat, 03 Apr 2021 06:48:09: start X-correlation... INFO @ Sat, 03 Apr 2021 06:48:09: 12000000 INFO @ Sat, 03 Apr 2021 06:48:09: end of X-cor INFO @ Sat, 03 Apr 2021 06:48:09: #2 finished! INFO @ Sat, 03 Apr 2021 06:48:09: #2 predicted fragment length is 74 bps INFO @ Sat, 03 Apr 2021 06:48:09: #2 alternative fragment length(s) may be 74 bps INFO @ Sat, 03 Apr 2021 06:48:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.10_model.r WARNING @ Sat, 03 Apr 2021 06:48:09: #2 Since the d (74) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:48:09: #2 You may need to consider one of the other alternative d(s): 74 WARNING @ Sat, 03 Apr 2021 06:48:09: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:48:09: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:48:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:48:14: 13000000 INFO @ Sat, 03 Apr 2021 06:48:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:48:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:48:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.05_summits.bed INFO @ Sat, 03 Apr 2021 06:48:16: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (9492 records, 4 fields): 10 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:48:19: 14000000 INFO @ Sat, 03 Apr 2021 06:48:24: 15000000 INFO @ Sat, 03 Apr 2021 06:48:26: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:48:26: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:48:26: #1 total tags in treatment: 15189996 INFO @ Sat, 03 Apr 2021 06:48:26: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:48:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:48:26: #1 tags after filtering in treatment: 15189996 INFO @ Sat, 03 Apr 2021 06:48:26: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:48:26: #1 finished! INFO @ Sat, 03 Apr 2021 06:48:26: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:48:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:48:27: #2 number of paired peaks: 551 WARNING @ Sat, 03 Apr 2021 06:48:27: Fewer paired peaks (551) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 551 pairs to build model! INFO @ Sat, 03 Apr 2021 06:48:27: start model_add_line... INFO @ Sat, 03 Apr 2021 06:48:27: start X-correlation... INFO @ Sat, 03 Apr 2021 06:48:27: end of X-cor INFO @ Sat, 03 Apr 2021 06:48:27: #2 finished! INFO @ Sat, 03 Apr 2021 06:48:27: #2 predicted fragment length is 74 bps INFO @ Sat, 03 Apr 2021 06:48:27: #2 alternative fragment length(s) may be 74 bps INFO @ Sat, 03 Apr 2021 06:48:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.20_model.r WARNING @ Sat, 03 Apr 2021 06:48:27: #2 Since the d (74) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:48:27: #2 You may need to consider one of the other alternative d(s): 74 WARNING @ Sat, 03 Apr 2021 06:48:27: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:48:27: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:48:27: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:48:42: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:48:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:48:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:48:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.10_summits.bed INFO @ Sat, 03 Apr 2021 06:48:58: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (5544 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:49:00: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:49:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:49:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:49:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010761/SRX5010761.20_summits.bed INFO @ Sat, 03 Apr 2021 06:49:17: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2238 records, 4 fields): 3 millis CompletedMACS2peakCalling