Job ID = 12265271 SRX = SRX5010731 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 22418822 spots for SRR8191156/SRR8191156.sra Written 22418822 spots for SRR8191156/SRR8191156.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265409 ("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: 00:07:16 22418822 reads; of these: 22418822 (100.00%) were unpaired; of these: 863926 (3.85%) aligned 0 times 12140603 (54.15%) aligned exactly 1 time 9414293 (41.99%) aligned >1 times 96.15% overall alignment rate Time searching: 00:07:16 Overall time: 00:07:16 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 12 files... [bam_rmdupse_core] 11617380 / 21554896 = 0.5390 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 06:34:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.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 06:34:38: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:34:38: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:34:46: 1000000 INFO @ Sat, 03 Apr 2021 06:34:55: 2000000 INFO @ Sat, 03 Apr 2021 06:35:03: 3000000 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 06:35:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.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 06:35:08: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:35:08: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:35:11: 4000000 INFO @ Sat, 03 Apr 2021 06:35:16: 1000000 INFO @ Sat, 03 Apr 2021 06:35:19: 5000000 INFO @ Sat, 03 Apr 2021 06:35:24: 2000000 INFO @ Sat, 03 Apr 2021 06:35:26: 6000000 INFO @ Sat, 03 Apr 2021 06:35:32: 3000000 INFO @ Sat, 03 Apr 2021 06:35:34: 7000000 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 06:35:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.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 06:35:39: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:35:39: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:35:39: 4000000 INFO @ Sat, 03 Apr 2021 06:35:42: 8000000 INFO @ Sat, 03 Apr 2021 06:35:47: 1000000 INFO @ Sat, 03 Apr 2021 06:35:47: 5000000 INFO @ Sat, 03 Apr 2021 06:35:50: 9000000 INFO @ Sat, 03 Apr 2021 06:35:54: 6000000 INFO @ Sat, 03 Apr 2021 06:35:55: 2000000 INFO @ Sat, 03 Apr 2021 06:35:57: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:35:57: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:35:57: #1 total tags in treatment: 9937516 INFO @ Sat, 03 Apr 2021 06:35:57: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:35:57: #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 06:35:58: #1 tags after filtering in treatment: 9937516 INFO @ Sat, 03 Apr 2021 06:35:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:35:58: #1 finished! INFO @ Sat, 03 Apr 2021 06:35:58: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:35:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:35:59: #2 number of paired peaks: 1375 INFO @ Sat, 03 Apr 2021 06:35:59: start model_add_line... INFO @ Sat, 03 Apr 2021 06:35:59: start X-correlation... INFO @ Sat, 03 Apr 2021 06:35:59: end of X-cor INFO @ Sat, 03 Apr 2021 06:35:59: #2 finished! INFO @ Sat, 03 Apr 2021 06:35:59: #2 predicted fragment length is 75 bps INFO @ Sat, 03 Apr 2021 06:35:59: #2 alternative fragment length(s) may be 75 bps INFO @ Sat, 03 Apr 2021 06:35:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.05_model.r WARNING @ Sat, 03 Apr 2021 06:35:59: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:35:59: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Sat, 03 Apr 2021 06:35:59: #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 06:35:59: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:35:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:36:02: 7000000 INFO @ Sat, 03 Apr 2021 06:36:03: 3000000 INFO @ Sat, 03 Apr 2021 06:36:10: 8000000 INFO @ Sat, 03 Apr 2021 06:36:10: 4000000 INFO @ Sat, 03 Apr 2021 06:36:17: 9000000 INFO @ Sat, 03 Apr 2021 06:36:17: 5000000 INFO @ Sat, 03 Apr 2021 06:36:24: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:36:24: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:36:24: #1 total tags in treatment: 9937516 INFO @ Sat, 03 Apr 2021 06:36:24: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:36:24: #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 06:36:25: #1 tags after filtering in treatment: 9937516 INFO @ Sat, 03 Apr 2021 06:36:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:36:25: #1 finished! INFO @ Sat, 03 Apr 2021 06:36:25: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:36:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:36:25: 6000000 INFO @ Sat, 03 Apr 2021 06:36:26: #2 number of paired peaks: 1375 INFO @ Sat, 03 Apr 2021 06:36:26: start model_add_line... INFO @ Sat, 03 Apr 2021 06:36:27: start X-correlation... INFO @ Sat, 03 Apr 2021 06:36:27: end of X-cor INFO @ Sat, 03 Apr 2021 06:36:27: #2 finished! INFO @ Sat, 03 Apr 2021 06:36:27: #2 predicted fragment length is 75 bps INFO @ Sat, 03 Apr 2021 06:36:27: #2 alternative fragment length(s) may be 75 bps INFO @ Sat, 03 Apr 2021 06:36:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.10_model.r WARNING @ Sat, 03 Apr 2021 06:36:27: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:36:27: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Sat, 03 Apr 2021 06:36:27: #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 06:36:27: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:36:27: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:36:31: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:36:33: 7000000 INFO @ Sat, 03 Apr 2021 06:36:40: 8000000 INFO @ Sat, 03 Apr 2021 06:36:48: 9000000 INFO @ Sat, 03 Apr 2021 06:36:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:36:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:36:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.05_summits.bed INFO @ Sat, 03 Apr 2021 06:36:49: Done! pass1 - making usageList (15 chroms): 8 millis pass2 - checking and writing primary data (11661 records, 4 fields): 33 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:36:55: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:36:55: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:36:55: #1 total tags in treatment: 9937516 INFO @ Sat, 03 Apr 2021 06:36:55: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:36:55: #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 06:36:55: #1 tags after filtering in treatment: 9937516 INFO @ Sat, 03 Apr 2021 06:36:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:36:55: #1 finished! INFO @ Sat, 03 Apr 2021 06:36:55: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:36:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:36:56: #2 number of paired peaks: 1375 INFO @ Sat, 03 Apr 2021 06:36:56: start model_add_line... INFO @ Sat, 03 Apr 2021 06:36:56: start X-correlation... INFO @ Sat, 03 Apr 2021 06:36:56: end of X-cor INFO @ Sat, 03 Apr 2021 06:36:56: #2 finished! INFO @ Sat, 03 Apr 2021 06:36:56: #2 predicted fragment length is 75 bps INFO @ Sat, 03 Apr 2021 06:36:56: #2 alternative fragment length(s) may be 75 bps INFO @ Sat, 03 Apr 2021 06:36:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.20_model.r WARNING @ Sat, 03 Apr 2021 06:36:56: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:36:56: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Sat, 03 Apr 2021 06:36:56: #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 06:36:56: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:36:56: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:37:00: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:37:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:37:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:37:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.10_summits.bed INFO @ Sat, 03 Apr 2021 06:37:18: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (6165 records, 4 fields): 10 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:37:30: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:37:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:37:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:37:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010731/SRX5010731.20_summits.bed INFO @ Sat, 03 Apr 2021 06:37:48: Done! pass1 - making usageList (14 chroms): 5 millis pass2 - checking and writing primary data (1926 records, 4 fields): 10 millis CompletedMACS2peakCalling BigWig に変換しました。