Job ID = 14159772 SRX = SRX8832064 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 28425778 spots for SRR12332006/SRR12332006.sra Written 28425778 spots for SRR12332006/SRR12332006.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160317 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:08:50 28425778 reads; of these: 28425778 (100.00%) were unpaired; of these: 1279389 (4.50%) aligned 0 times 23137526 (81.40%) aligned exactly 1 time 4008863 (14.10%) aligned >1 times 95.50% overall alignment rate Time searching: 00:08:51 Overall time: 00:08:51 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] 5656883 / 27146389 = 0.2084 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 00:46:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.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 00:46:36: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:46:36: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:46:46: 1000000 INFO @ Thu, 09 Dec 2021 00:46:54: 2000000 INFO @ Thu, 09 Dec 2021 00:47:03: 3000000 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 00:47:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.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 00:47:06: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:47:06: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:47:13: 4000000 INFO @ Thu, 09 Dec 2021 00:47:16: 1000000 INFO @ Thu, 09 Dec 2021 00:47:22: 5000000 INFO @ Thu, 09 Dec 2021 00:47:26: 2000000 INFO @ Thu, 09 Dec 2021 00:47:31: 6000000 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 00:47:35: 3000000 INFO @ Thu, 09 Dec 2021 00:47:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.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 00:47:36: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:47:36: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:47:40: 7000000 INFO @ Thu, 09 Dec 2021 00:47:44: 4000000 INFO @ Thu, 09 Dec 2021 00:47:46: 1000000 INFO @ Thu, 09 Dec 2021 00:47:49: 8000000 INFO @ Thu, 09 Dec 2021 00:47:52: 5000000 INFO @ Thu, 09 Dec 2021 00:47:56: 2000000 INFO @ Thu, 09 Dec 2021 00:47:57: 9000000 INFO @ Thu, 09 Dec 2021 00:48:02: 6000000 INFO @ Thu, 09 Dec 2021 00:48:07: 3000000 INFO @ Thu, 09 Dec 2021 00:48:08: 10000000 INFO @ Thu, 09 Dec 2021 00:48:13: 7000000 INFO @ Thu, 09 Dec 2021 00:48:18: 4000000 INFO @ Thu, 09 Dec 2021 00:48:18: 11000000 INFO @ Thu, 09 Dec 2021 00:48:23: 8000000 INFO @ Thu, 09 Dec 2021 00:48:28: 5000000 INFO @ Thu, 09 Dec 2021 00:48:29: 12000000 INFO @ Thu, 09 Dec 2021 00:48:34: 9000000 INFO @ Thu, 09 Dec 2021 00:48:39: 6000000 INFO @ Thu, 09 Dec 2021 00:48:39: 13000000 INFO @ Thu, 09 Dec 2021 00:48:45: 10000000 INFO @ Thu, 09 Dec 2021 00:48:49: 7000000 INFO @ Thu, 09 Dec 2021 00:48:50: 14000000 INFO @ Thu, 09 Dec 2021 00:48:55: 11000000 INFO @ Thu, 09 Dec 2021 00:49:00: 15000000 INFO @ Thu, 09 Dec 2021 00:49:00: 8000000 INFO @ Thu, 09 Dec 2021 00:49:05: 12000000 INFO @ Thu, 09 Dec 2021 00:49:09: 16000000 INFO @ Thu, 09 Dec 2021 00:49:10: 9000000 INFO @ Thu, 09 Dec 2021 00:49:14: 13000000 INFO @ Thu, 09 Dec 2021 00:49:18: 17000000 INFO @ Thu, 09 Dec 2021 00:49:21: 10000000 INFO @ Thu, 09 Dec 2021 00:49:24: 14000000 INFO @ Thu, 09 Dec 2021 00:49:28: 18000000 INFO @ Thu, 09 Dec 2021 00:49:32: 11000000 INFO @ Thu, 09 Dec 2021 00:49:35: 15000000 INFO @ Thu, 09 Dec 2021 00:49:39: 19000000 INFO @ Thu, 09 Dec 2021 00:49:42: 12000000 INFO @ Thu, 09 Dec 2021 00:49:44: 16000000 INFO @ Thu, 09 Dec 2021 00:49:48: 20000000 INFO @ Thu, 09 Dec 2021 00:49:52: 13000000 INFO @ Thu, 09 Dec 2021 00:49:55: 17000000 INFO @ Thu, 09 Dec 2021 00:49:59: 21000000 INFO @ Thu, 09 Dec 2021 00:50:03: 14000000 INFO @ Thu, 09 Dec 2021 00:50:04: #1 tag size is determined as 51 bps INFO @ Thu, 09 Dec 2021 00:50:04: #1 tag size = 51 INFO @ Thu, 09 Dec 2021 00:50:04: #1 total tags in treatment: 21489506 INFO @ Thu, 09 Dec 2021 00:50:04: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:50:04: #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 00:50:04: #1 tags after filtering in treatment: 21489506 INFO @ Thu, 09 Dec 2021 00:50:04: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:50:04: #1 finished! INFO @ Thu, 09 Dec 2021 00:50:04: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:50:04: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:50:05: 18000000 INFO @ Thu, 09 Dec 2021 00:50:06: #2 number of paired peaks: 520 WARNING @ Thu, 09 Dec 2021 00:50:06: Fewer paired peaks (520) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 520 pairs to build model! INFO @ Thu, 09 Dec 2021 00:50:06: start model_add_line... INFO @ Thu, 09 Dec 2021 00:50:07: start X-correlation... INFO @ Thu, 09 Dec 2021 00:50:07: end of X-cor INFO @ Thu, 09 Dec 2021 00:50:07: #2 finished! INFO @ Thu, 09 Dec 2021 00:50:07: #2 predicted fragment length is 171 bps INFO @ Thu, 09 Dec 2021 00:50:07: #2 alternative fragment length(s) may be 3,171 bps INFO @ Thu, 09 Dec 2021 00:50:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.05_model.r INFO @ Thu, 09 Dec 2021 00:50:07: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:50:07: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:50:13: 15000000 INFO @ Thu, 09 Dec 2021 00:50:14: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 00:50:23: 16000000 INFO @ Thu, 09 Dec 2021 00:50:23: 20000000 INFO @ Thu, 09 Dec 2021 00:50:32: 21000000 INFO @ Thu, 09 Dec 2021 00:50:33: 17000000 INFO @ Thu, 09 Dec 2021 00:50:37: #1 tag size is determined as 51 bps INFO @ Thu, 09 Dec 2021 00:50:37: #1 tag size = 51 INFO @ Thu, 09 Dec 2021 00:50:37: #1 total tags in treatment: 21489506 INFO @ Thu, 09 Dec 2021 00:50:37: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:50:37: #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 00:50:37: #1 tags after filtering in treatment: 21489506 INFO @ Thu, 09 Dec 2021 00:50:37: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:50:37: #1 finished! INFO @ Thu, 09 Dec 2021 00:50:37: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:50:37: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:50:39: #2 number of paired peaks: 520 WARNING @ Thu, 09 Dec 2021 00:50:39: Fewer paired peaks (520) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 520 pairs to build model! INFO @ Thu, 09 Dec 2021 00:50:39: start model_add_line... INFO @ Thu, 09 Dec 2021 00:50:40: start X-correlation... INFO @ Thu, 09 Dec 2021 00:50:40: end of X-cor INFO @ Thu, 09 Dec 2021 00:50:40: #2 finished! INFO @ Thu, 09 Dec 2021 00:50:40: #2 predicted fragment length is 171 bps INFO @ Thu, 09 Dec 2021 00:50:40: #2 alternative fragment length(s) may be 3,171 bps INFO @ Thu, 09 Dec 2021 00:50:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.10_model.r INFO @ Thu, 09 Dec 2021 00:50:40: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:50:40: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:50:43: 18000000 INFO @ Thu, 09 Dec 2021 00:50:53: 19000000 INFO @ Thu, 09 Dec 2021 00:51:02: 20000000 INFO @ Thu, 09 Dec 2021 00:51:12: 21000000 INFO @ Thu, 09 Dec 2021 00:51:15: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:51:17: #1 tag size is determined as 51 bps INFO @ Thu, 09 Dec 2021 00:51:17: #1 tag size = 51 INFO @ Thu, 09 Dec 2021 00:51:17: #1 total tags in treatment: 21489506 INFO @ Thu, 09 Dec 2021 00:51:17: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:51:17: #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 00:51:17: #1 tags after filtering in treatment: 21489506 INFO @ Thu, 09 Dec 2021 00:51:17: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:51:17: #1 finished! INFO @ Thu, 09 Dec 2021 00:51:17: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:51:17: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:51:19: #2 number of paired peaks: 520 WARNING @ Thu, 09 Dec 2021 00:51:19: Fewer paired peaks (520) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 520 pairs to build model! INFO @ Thu, 09 Dec 2021 00:51:19: start model_add_line... INFO @ Thu, 09 Dec 2021 00:51:20: start X-correlation... INFO @ Thu, 09 Dec 2021 00:51:20: end of X-cor INFO @ Thu, 09 Dec 2021 00:51:20: #2 finished! INFO @ Thu, 09 Dec 2021 00:51:20: #2 predicted fragment length is 171 bps INFO @ Thu, 09 Dec 2021 00:51:20: #2 alternative fragment length(s) may be 3,171 bps INFO @ Thu, 09 Dec 2021 00:51:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.20_model.r INFO @ Thu, 09 Dec 2021 00:51:20: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:51:20: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 00:51:42: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.05_peaks.xls INFO @ Thu, 09 Dec 2021 00:51:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:51:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.05_summits.bed INFO @ Thu, 09 Dec 2021 00:51:43: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (9580 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 00:51:46: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:52:13: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.10_peaks.xls INFO @ Thu, 09 Dec 2021 00:52:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:52:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.10_summits.bed INFO @ Thu, 09 Dec 2021 00:52:14: Done! pass1 - making usageList (6 chroms): 4 millis pass2 - checking and writing primary data (7033 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 00:52:24: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:52:51: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.20_peaks.xls INFO @ Thu, 09 Dec 2021 00:52:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:52:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.20_summits.bed INFO @ Thu, 09 Dec 2021 00:52:51: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (4057 records, 4 fields): 7 millis CompletedMACS2peakCalling