Job ID = 14160425 SRX = SRX8582560 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 39640254 spots for SRR12054121/SRR12054121.sra Written 39640254 spots for SRR12054121/SRR12054121.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160571 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:09:00 39640254 reads; of these: 39640254 (100.00%) were unpaired; of these: 1686833 (4.26%) aligned 0 times 31249410 (78.83%) aligned exactly 1 time 6704011 (16.91%) aligned >1 times 95.74% overall alignment rate Time searching: 00:09:01 Overall time: 00:09:01 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 16 files... [bam_rmdupse_core] 23401249 / 37953421 = 0.6166 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 02:38:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.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 @ Thu, 09 Dec 2021 02:38:23: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:38:23: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:38:28: 1000000 INFO @ Thu, 09 Dec 2021 02:38:33: 2000000 INFO @ Thu, 09 Dec 2021 02:38:38: 3000000 INFO @ Thu, 09 Dec 2021 02:38:44: 4000000 INFO @ Thu, 09 Dec 2021 02:38:49: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 02:38:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.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 @ Thu, 09 Dec 2021 02:38:52: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:38:52: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:38:54: 6000000 INFO @ Thu, 09 Dec 2021 02:38:58: 1000000 INFO @ Thu, 09 Dec 2021 02:39:00: 7000000 INFO @ Thu, 09 Dec 2021 02:39:04: 2000000 INFO @ Thu, 09 Dec 2021 02:39:06: 8000000 INFO @ Thu, 09 Dec 2021 02:39:10: 3000000 INFO @ Thu, 09 Dec 2021 02:39:12: 9000000 INFO @ Thu, 09 Dec 2021 02:39:16: 4000000 INFO @ Thu, 09 Dec 2021 02:39:18: 10000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 02:39:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.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 @ Thu, 09 Dec 2021 02:39:22: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:39:22: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:39:22: 5000000 INFO @ Thu, 09 Dec 2021 02:39:24: 11000000 INFO @ Thu, 09 Dec 2021 02:39:28: 1000000 INFO @ Thu, 09 Dec 2021 02:39:28: 6000000 INFO @ Thu, 09 Dec 2021 02:39:30: 12000000 INFO @ Thu, 09 Dec 2021 02:39:34: 2000000 INFO @ Thu, 09 Dec 2021 02:39:34: 7000000 INFO @ Thu, 09 Dec 2021 02:39:36: 13000000 INFO @ Thu, 09 Dec 2021 02:39:40: 3000000 INFO @ Thu, 09 Dec 2021 02:39:40: 8000000 INFO @ Thu, 09 Dec 2021 02:39:43: 14000000 INFO @ Thu, 09 Dec 2021 02:39:46: #1 tag size is determined as 51 bps INFO @ Thu, 09 Dec 2021 02:39:46: #1 tag size = 51 INFO @ Thu, 09 Dec 2021 02:39:46: #1 total tags in treatment: 14552172 INFO @ Thu, 09 Dec 2021 02:39:46: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:39:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 02:39:46: #1 tags after filtering in treatment: 14552172 INFO @ Thu, 09 Dec 2021 02:39:46: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:39:46: #1 finished! INFO @ Thu, 09 Dec 2021 02:39:46: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:39:46: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:39:46: 4000000 INFO @ Thu, 09 Dec 2021 02:39:47: 9000000 INFO @ Thu, 09 Dec 2021 02:39:47: #2 number of paired peaks: 481 WARNING @ Thu, 09 Dec 2021 02:39:47: Fewer paired peaks (481) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 481 pairs to build model! INFO @ Thu, 09 Dec 2021 02:39:47: start model_add_line... INFO @ Thu, 09 Dec 2021 02:39:47: start X-correlation... INFO @ Thu, 09 Dec 2021 02:39:47: end of X-cor INFO @ Thu, 09 Dec 2021 02:39:47: #2 finished! INFO @ Thu, 09 Dec 2021 02:39:47: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 02:39:47: #2 alternative fragment length(s) may be 1,31 bps INFO @ Thu, 09 Dec 2021 02:39:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.05_model.r WARNING @ Thu, 09 Dec 2021 02:39:47: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 02:39:47: #2 You may need to consider one of the other alternative d(s): 1,31 WARNING @ Thu, 09 Dec 2021 02:39:47: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 02:39:47: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:39:47: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:39:52: 5000000 INFO @ Thu, 09 Dec 2021 02:39:53: 10000000 INFO @ Thu, 09 Dec 2021 02:39:59: 6000000 INFO @ Thu, 09 Dec 2021 02:39:59: 11000000 INFO @ Thu, 09 Dec 2021 02:40:05: 7000000 INFO @ Thu, 09 Dec 2021 02:40:05: 12000000 INFO @ Thu, 09 Dec 2021 02:40:10: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:40:11: 8000000 INFO @ Thu, 09 Dec 2021 02:40:11: 13000000 INFO @ Thu, 09 Dec 2021 02:40:17: 9000000 INFO @ Thu, 09 Dec 2021 02:40:17: 14000000 INFO @ Thu, 09 Dec 2021 02:40:21: #1 tag size is determined as 51 bps INFO @ Thu, 09 Dec 2021 02:40:21: #1 tag size = 51 INFO @ Thu, 09 Dec 2021 02:40:21: #1 total tags in treatment: 14552172 INFO @ Thu, 09 Dec 2021 02:40:21: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:40:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 02:40:21: #1 tags after filtering in treatment: 14552172 INFO @ Thu, 09 Dec 2021 02:40:21: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:40:21: #1 finished! INFO @ Thu, 09 Dec 2021 02:40:21: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:40:21: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:40:21: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.05_peaks.xls INFO @ Thu, 09 Dec 2021 02:40:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:40:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.05_summits.bed INFO @ Thu, 09 Dec 2021 02:40:21: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 02:40:22: #2 number of paired peaks: 481 WARNING @ Thu, 09 Dec 2021 02:40:22: Fewer paired peaks (481) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 481 pairs to build model! INFO @ Thu, 09 Dec 2021 02:40:22: start model_add_line... INFO @ Thu, 09 Dec 2021 02:40:22: start X-correlation... INFO @ Thu, 09 Dec 2021 02:40:22: end of X-cor INFO @ Thu, 09 Dec 2021 02:40:22: #2 finished! INFO @ Thu, 09 Dec 2021 02:40:22: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 02:40:22: #2 alternative fragment length(s) may be 1,31 bps INFO @ Thu, 09 Dec 2021 02:40:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.10_model.r WARNING @ Thu, 09 Dec 2021 02:40:22: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 02:40:22: #2 You may need to consider one of the other alternative d(s): 1,31 WARNING @ Thu, 09 Dec 2021 02:40:22: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 02:40:22: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:40:22: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:40:23: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 02:40:28: 11000000 INFO @ Thu, 09 Dec 2021 02:40:34: 12000000 INFO @ Thu, 09 Dec 2021 02:40:40: 13000000 INFO @ Thu, 09 Dec 2021 02:40:46: 14000000 INFO @ Thu, 09 Dec 2021 02:40:46: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:40:49: #1 tag size is determined as 51 bps INFO @ Thu, 09 Dec 2021 02:40:49: #1 tag size = 51 INFO @ Thu, 09 Dec 2021 02:40:49: #1 total tags in treatment: 14552172 INFO @ Thu, 09 Dec 2021 02:40:49: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:40:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 02:40:49: #1 tags after filtering in treatment: 14552172 INFO @ Thu, 09 Dec 2021 02:40:49: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:40:49: #1 finished! INFO @ Thu, 09 Dec 2021 02:40:49: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:40:49: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:40:50: #2 number of paired peaks: 481 WARNING @ Thu, 09 Dec 2021 02:40:50: Fewer paired peaks (481) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 481 pairs to build model! INFO @ Thu, 09 Dec 2021 02:40:50: start model_add_line... INFO @ Thu, 09 Dec 2021 02:40:50: start X-correlation... INFO @ Thu, 09 Dec 2021 02:40:50: end of X-cor INFO @ Thu, 09 Dec 2021 02:40:50: #2 finished! INFO @ Thu, 09 Dec 2021 02:40:50: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 02:40:50: #2 alternative fragment length(s) may be 1,31 bps INFO @ Thu, 09 Dec 2021 02:40:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.20_model.r WARNING @ Thu, 09 Dec 2021 02:40:50: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 02:40:50: #2 You may need to consider one of the other alternative d(s): 1,31 WARNING @ Thu, 09 Dec 2021 02:40:50: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 02:40:50: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:40:50: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 02:40:57: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.10_peaks.xls INFO @ Thu, 09 Dec 2021 02:40:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:40:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.10_summits.bed INFO @ Thu, 09 Dec 2021 02:40:57: Done! pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 02:41:14: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:41:25: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.20_peaks.xls INFO @ Thu, 09 Dec 2021 02:41:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:41:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8582560/SRX8582560.20_summits.bed INFO @ Thu, 09 Dec 2021 02:41:25: Done! pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling