Job ID = 12264805 SRX = SRX7246262 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 5668720 spots for SRR10564665/SRR10564665.sra Written 5668720 spots for SRR10564665/SRR10564665.sra Read 5755423 spots for SRR10564666/SRR10564666.sra Written 5755423 spots for SRR10564666/SRR10564666.sra Read 4646472 spots for SRR10564667/SRR10564667.sra Written 4646472 spots for SRR10564667/SRR10564667.sra Read 4878750 spots for SRR10564668/SRR10564668.sra Written 4878750 spots for SRR10564668/SRR10564668.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265049 ("srTce11") 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: 00:04:25 20949365 reads; of these: 20949365 (100.00%) were unpaired; of these: 1196813 (5.71%) aligned 0 times 17308389 (82.62%) aligned exactly 1 time 2444163 (11.67%) aligned >1 times 94.29% overall alignment rate Time searching: 00:04:25 Overall time: 00:04:25 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 12350862 / 19752552 = 0.6253 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 06:02:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.bam'] # control file = None # effective genome size = 9.00e+07 # 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 06:02:56: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:02:56: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:03:03: 1000000 INFO @ Sat, 03 Apr 2021 06:03:09: 2000000 INFO @ Sat, 03 Apr 2021 06:03:15: 3000000 INFO @ Sat, 03 Apr 2021 06:03:21: 4000000 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 06:03:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.bam'] # control file = None # effective genome size = 9.00e+07 # 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 06:03:26: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:03:26: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:03:27: 5000000 INFO @ Sat, 03 Apr 2021 06:03:33: 1000000 INFO @ Sat, 03 Apr 2021 06:03:34: 6000000 INFO @ Sat, 03 Apr 2021 06:03:40: 2000000 INFO @ Sat, 03 Apr 2021 06:03:40: 7000000 INFO @ Sat, 03 Apr 2021 06:03:43: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:03:43: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:03:43: #1 total tags in treatment: 7401690 INFO @ Sat, 03 Apr 2021 06:03:43: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:03:43: #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 06:03:43: #1 tags after filtering in treatment: 7401690 INFO @ Sat, 03 Apr 2021 06:03:43: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:03:43: #1 finished! INFO @ Sat, 03 Apr 2021 06:03:43: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:03:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:03:43: #2 number of paired peaks: 1157 INFO @ Sat, 03 Apr 2021 06:03:43: start model_add_line... INFO @ Sat, 03 Apr 2021 06:03:44: start X-correlation... INFO @ Sat, 03 Apr 2021 06:03:44: end of X-cor INFO @ Sat, 03 Apr 2021 06:03:44: #2 finished! INFO @ Sat, 03 Apr 2021 06:03:44: #2 predicted fragment length is 97 bps INFO @ Sat, 03 Apr 2021 06:03:44: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 03 Apr 2021 06:03:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.05_model.r WARNING @ Sat, 03 Apr 2021 06:03:44: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:03:44: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 03 Apr 2021 06:03:44: #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 06:03:44: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:03:44: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:03:47: 3000000 INFO @ Sat, 03 Apr 2021 06:03:53: 4000000 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 06:03:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.bam'] # control file = None # effective genome size = 9.00e+07 # 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 06:03:56: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:03:56: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:03:59: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:04:00: 5000000 INFO @ Sat, 03 Apr 2021 06:04:04: 1000000 INFO @ Sat, 03 Apr 2021 06:04:06: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:04:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:04:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.05_summits.bed INFO @ Sat, 03 Apr 2021 06:04:07: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6731 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:04:07: 6000000 INFO @ Sat, 03 Apr 2021 06:04:11: 2000000 INFO @ Sat, 03 Apr 2021 06:04:14: 7000000 INFO @ Sat, 03 Apr 2021 06:04:17: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:04:17: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:04:17: #1 total tags in treatment: 7401690 INFO @ Sat, 03 Apr 2021 06:04:17: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:04:17: #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 06:04:17: #1 tags after filtering in treatment: 7401690 INFO @ Sat, 03 Apr 2021 06:04:17: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:04:17: #1 finished! INFO @ Sat, 03 Apr 2021 06:04:17: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:04:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:04:17: #2 number of paired peaks: 1157 INFO @ Sat, 03 Apr 2021 06:04:17: start model_add_line... INFO @ Sat, 03 Apr 2021 06:04:18: start X-correlation... INFO @ Sat, 03 Apr 2021 06:04:18: end of X-cor INFO @ Sat, 03 Apr 2021 06:04:18: #2 finished! INFO @ Sat, 03 Apr 2021 06:04:18: #2 predicted fragment length is 97 bps INFO @ Sat, 03 Apr 2021 06:04:18: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 03 Apr 2021 06:04:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.10_model.r WARNING @ Sat, 03 Apr 2021 06:04:18: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:04:18: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 03 Apr 2021 06:04:18: #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 06:04:18: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:04:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:04:18: 3000000 INFO @ Sat, 03 Apr 2021 06:04:24: 4000000 INFO @ Sat, 03 Apr 2021 06:04:31: 5000000 INFO @ Sat, 03 Apr 2021 06:04:33: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:04:37: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:04:41: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:04:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:04:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.10_summits.bed INFO @ Sat, 03 Apr 2021 06:04:41: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4410 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:04:44: 7000000 INFO @ Sat, 03 Apr 2021 06:04:46: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:04:46: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:04:46: #1 total tags in treatment: 7401690 INFO @ Sat, 03 Apr 2021 06:04:46: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:04:46: #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 06:04:46: #1 tags after filtering in treatment: 7401690 INFO @ Sat, 03 Apr 2021 06:04:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:04:46: #1 finished! INFO @ Sat, 03 Apr 2021 06:04:47: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:04:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:04:47: #2 number of paired peaks: 1157 INFO @ Sat, 03 Apr 2021 06:04:47: start model_add_line... INFO @ Sat, 03 Apr 2021 06:04:47: start X-correlation... INFO @ Sat, 03 Apr 2021 06:04:47: end of X-cor INFO @ Sat, 03 Apr 2021 06:04:47: #2 finished! INFO @ Sat, 03 Apr 2021 06:04:47: #2 predicted fragment length is 97 bps INFO @ Sat, 03 Apr 2021 06:04:47: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 03 Apr 2021 06:04:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.20_model.r WARNING @ Sat, 03 Apr 2021 06:04:47: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:04:47: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 03 Apr 2021 06:04:47: #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 06:04:47: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:04:47: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:05:02: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:05:10: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:05:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:05:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246262/SRX7246262.20_summits.bed INFO @ Sat, 03 Apr 2021 06:05:10: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (2220 records, 4 fields): 4 millis CompletedMACS2peakCalling