Job ID = 12264811 SRX = SRX7246268 Genome = ce10 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 34161503 spots for SRR10564682/SRR10564682.sra Written 34161503 spots for SRR10564682/SRR10564682.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265425 ("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: 00:36:41 34161503 reads; of these: 34161503 (100.00%) were paired; of these: 2784333 (8.15%) aligned concordantly 0 times 28091167 (82.23%) aligned concordantly exactly 1 time 3286003 (9.62%) aligned concordantly >1 times ---- 2784333 pairs aligned concordantly 0 times; of these: 1218735 (43.77%) aligned discordantly 1 time ---- 1565598 pairs aligned 0 times concordantly or discordantly; of these: 3131196 mates make up the pairs; of these: 2441275 (77.97%) aligned 0 times 381021 (12.17%) aligned exactly 1 time 308900 (9.87%) aligned >1 times 96.43% overall alignment rate Time searching: 00:36:41 Overall time: 00:36:41 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 28 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] 12400734 / 32497650 = 0.3816 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 06:53:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.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 06:53:07: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:53:07: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:53:15: 1000000 INFO @ Sat, 03 Apr 2021 06:53:23: 2000000 INFO @ Sat, 03 Apr 2021 06:53:31: 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 06:53:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.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 06:53:38: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:53:38: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:53:40: 4000000 INFO @ Sat, 03 Apr 2021 06:53:47: 1000000 INFO @ Sat, 03 Apr 2021 06:53:48: 5000000 INFO @ Sat, 03 Apr 2021 06:53:56: 2000000 INFO @ Sat, 03 Apr 2021 06:53:56: 6000000 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 06:54:05: 3000000 INFO @ Sat, 03 Apr 2021 06:54:06: 7000000 INFO @ Sat, 03 Apr 2021 06:54:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.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 06:54:07: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:54:07: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:54:14: 4000000 INFO @ Sat, 03 Apr 2021 06:54:16: 1000000 INFO @ Sat, 03 Apr 2021 06:54:16: 8000000 INFO @ Sat, 03 Apr 2021 06:54:23: 5000000 INFO @ Sat, 03 Apr 2021 06:54:25: 9000000 INFO @ Sat, 03 Apr 2021 06:54:27: 2000000 INFO @ Sat, 03 Apr 2021 06:54:33: 6000000 INFO @ Sat, 03 Apr 2021 06:54:33: 10000000 INFO @ Sat, 03 Apr 2021 06:54:37: 3000000 INFO @ Sat, 03 Apr 2021 06:54:41: 7000000 INFO @ Sat, 03 Apr 2021 06:54:43: 11000000 INFO @ Sat, 03 Apr 2021 06:54:47: 4000000 INFO @ Sat, 03 Apr 2021 06:54:50: 8000000 INFO @ Sat, 03 Apr 2021 06:54:52: 12000000 INFO @ Sat, 03 Apr 2021 06:54:57: 5000000 INFO @ Sat, 03 Apr 2021 06:54:59: 9000000 INFO @ Sat, 03 Apr 2021 06:55:00: 13000000 INFO @ Sat, 03 Apr 2021 06:55:07: 6000000 INFO @ Sat, 03 Apr 2021 06:55:09: 10000000 INFO @ Sat, 03 Apr 2021 06:55:12: 14000000 INFO @ Sat, 03 Apr 2021 06:55:16: 7000000 INFO @ Sat, 03 Apr 2021 06:55:18: 11000000 INFO @ Sat, 03 Apr 2021 06:55:19: 15000000 INFO @ Sat, 03 Apr 2021 06:55:25: 8000000 INFO @ Sat, 03 Apr 2021 06:55:27: 12000000 INFO @ Sat, 03 Apr 2021 06:55:29: 16000000 INFO @ Sat, 03 Apr 2021 06:55:34: 13000000 INFO @ Sat, 03 Apr 2021 06:55:34: 9000000 INFO @ Sat, 03 Apr 2021 06:55:39: 17000000 INFO @ Sat, 03 Apr 2021 06:55:42: 14000000 INFO @ Sat, 03 Apr 2021 06:55:43: 10000000 INFO @ Sat, 03 Apr 2021 06:55:49: 18000000 INFO @ Sat, 03 Apr 2021 06:55:51: 15000000 INFO @ Sat, 03 Apr 2021 06:55:53: 11000000 INFO @ Sat, 03 Apr 2021 06:55:59: 16000000 INFO @ Sat, 03 Apr 2021 06:55:59: 19000000 INFO @ Sat, 03 Apr 2021 06:56:03: 12000000 INFO @ Sat, 03 Apr 2021 06:56:09: 17000000 INFO @ Sat, 03 Apr 2021 06:56:09: 20000000 INFO @ Sat, 03 Apr 2021 06:56:13: 13000000 INFO @ Sat, 03 Apr 2021 06:56:17: 18000000 INFO @ Sat, 03 Apr 2021 06:56:18: 21000000 INFO @ Sat, 03 Apr 2021 06:56:23: 14000000 INFO @ Sat, 03 Apr 2021 06:56:25: 19000000 INFO @ Sat, 03 Apr 2021 06:56:27: 22000000 INFO @ Sat, 03 Apr 2021 06:56:32: 15000000 INFO @ Sat, 03 Apr 2021 06:56:34: 20000000 INFO @ Sat, 03 Apr 2021 06:56:36: 23000000 INFO @ Sat, 03 Apr 2021 06:56:42: 21000000 INFO @ Sat, 03 Apr 2021 06:56:42: 16000000 INFO @ Sat, 03 Apr 2021 06:56:47: 24000000 INFO @ Sat, 03 Apr 2021 06:56:50: 22000000 INFO @ Sat, 03 Apr 2021 06:56:54: 17000000 INFO @ Sat, 03 Apr 2021 06:56:55: 25000000 INFO @ Sat, 03 Apr 2021 06:56:57: 23000000 INFO @ Sat, 03 Apr 2021 06:57:02: 26000000 INFO @ Sat, 03 Apr 2021 06:57:04: 18000000 INFO @ Sat, 03 Apr 2021 06:57:05: 24000000 INFO @ Sat, 03 Apr 2021 06:57:09: 27000000 INFO @ Sat, 03 Apr 2021 06:57:12: 25000000 INFO @ Sat, 03 Apr 2021 06:57:12: 19000000 INFO @ Sat, 03 Apr 2021 06:57:17: 28000000 INFO @ Sat, 03 Apr 2021 06:57:19: 26000000 INFO @ Sat, 03 Apr 2021 06:57:21: 20000000 INFO @ Sat, 03 Apr 2021 06:57:25: 29000000 INFO @ Sat, 03 Apr 2021 06:57:26: 27000000 INFO @ Sat, 03 Apr 2021 06:57:29: 21000000 INFO @ Sat, 03 Apr 2021 06:57:32: 30000000 INFO @ Sat, 03 Apr 2021 06:57:34: 28000000 INFO @ Sat, 03 Apr 2021 06:57:36: 22000000 INFO @ Sat, 03 Apr 2021 06:57:40: 31000000 INFO @ Sat, 03 Apr 2021 06:57:42: 29000000 INFO @ Sat, 03 Apr 2021 06:57:43: 23000000 INFO @ Sat, 03 Apr 2021 06:57:47: 32000000 INFO @ Sat, 03 Apr 2021 06:57:50: 30000000 INFO @ Sat, 03 Apr 2021 06:57:51: 24000000 INFO @ Sat, 03 Apr 2021 06:57:54: 33000000 INFO @ Sat, 03 Apr 2021 06:57:57: 31000000 INFO @ Sat, 03 Apr 2021 06:57:58: 25000000 INFO @ Sat, 03 Apr 2021 06:58:03: 34000000 INFO @ Sat, 03 Apr 2021 06:58:04: 32000000 INFO @ Sat, 03 Apr 2021 06:58:05: 26000000 INFO @ Sat, 03 Apr 2021 06:58:10: 35000000 INFO @ Sat, 03 Apr 2021 06:58:11: 33000000 INFO @ Sat, 03 Apr 2021 06:58:13: 27000000 INFO @ Sat, 03 Apr 2021 06:58:17: 36000000 INFO @ Sat, 03 Apr 2021 06:58:18: 34000000 INFO @ Sat, 03 Apr 2021 06:58:21: 28000000 INFO @ Sat, 03 Apr 2021 06:58:24: 37000000 INFO @ Sat, 03 Apr 2021 06:58:24: 35000000 INFO @ Sat, 03 Apr 2021 06:58:28: 29000000 INFO @ Sat, 03 Apr 2021 06:58:31: 36000000 INFO @ Sat, 03 Apr 2021 06:58:32: 38000000 INFO @ Sat, 03 Apr 2021 06:58:35: 30000000 INFO @ Sat, 03 Apr 2021 06:58:38: 37000000 INFO @ Sat, 03 Apr 2021 06:58:39: 39000000 INFO @ Sat, 03 Apr 2021 06:58:42: 31000000 INFO @ Sat, 03 Apr 2021 06:58:46: 38000000 INFO @ Sat, 03 Apr 2021 06:58:48: 40000000 INFO @ Sat, 03 Apr 2021 06:58:48: 32000000 INFO @ Sat, 03 Apr 2021 06:58:54: 39000000 INFO @ Sat, 03 Apr 2021 06:58:55: 41000000 INFO @ Sat, 03 Apr 2021 06:58:56: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:58:56: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:58:56: #1 total tags in treatment: 19171166 INFO @ Sat, 03 Apr 2021 06:58:56: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:58:56: #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 06:58:56: #1 tags after filtering in treatment: 12152580 INFO @ Sat, 03 Apr 2021 06:58:56: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 03 Apr 2021 06:58:56: #1 finished! INFO @ Sat, 03 Apr 2021 06:58:56: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:58:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:58:56: 33000000 INFO @ Sat, 03 Apr 2021 06:58:58: #2 number of paired peaks: 664 WARNING @ Sat, 03 Apr 2021 06:58:58: Fewer paired peaks (664) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 664 pairs to build model! INFO @ Sat, 03 Apr 2021 06:58:58: start model_add_line... INFO @ Sat, 03 Apr 2021 06:58:58: start X-correlation... INFO @ Sat, 03 Apr 2021 06:58:58: end of X-cor INFO @ Sat, 03 Apr 2021 06:58:58: #2 finished! INFO @ Sat, 03 Apr 2021 06:58:58: #2 predicted fragment length is 107 bps INFO @ Sat, 03 Apr 2021 06:58:58: #2 alternative fragment length(s) may be 107 bps INFO @ Sat, 03 Apr 2021 06:58:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.05_model.r INFO @ Sat, 03 Apr 2021 06:58:58: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:58:58: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:59:01: 40000000 INFO @ Sat, 03 Apr 2021 06:59:04: 34000000 INFO @ Sat, 03 Apr 2021 06:59:08: 41000000 INFO @ Sat, 03 Apr 2021 06:59:09: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:59:09: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:59:09: #1 total tags in treatment: 19171166 INFO @ Sat, 03 Apr 2021 06:59:09: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:59:09: #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 06:59:10: #1 tags after filtering in treatment: 12152580 INFO @ Sat, 03 Apr 2021 06:59:10: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 03 Apr 2021 06:59:10: #1 finished! INFO @ Sat, 03 Apr 2021 06:59:10: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:59:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:59:11: #2 number of paired peaks: 664 WARNING @ Sat, 03 Apr 2021 06:59:11: Fewer paired peaks (664) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 664 pairs to build model! INFO @ Sat, 03 Apr 2021 06:59:11: start model_add_line... INFO @ Sat, 03 Apr 2021 06:59:11: start X-correlation... INFO @ Sat, 03 Apr 2021 06:59:11: end of X-cor INFO @ Sat, 03 Apr 2021 06:59:11: #2 finished! INFO @ Sat, 03 Apr 2021 06:59:11: #2 predicted fragment length is 107 bps INFO @ Sat, 03 Apr 2021 06:59:11: #2 alternative fragment length(s) may be 107 bps INFO @ Sat, 03 Apr 2021 06:59:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.10_model.r INFO @ Sat, 03 Apr 2021 06:59:11: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:59:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:59:11: 35000000 INFO @ Sat, 03 Apr 2021 06:59:18: 36000000 INFO @ Sat, 03 Apr 2021 06:59:24: 37000000 INFO @ Sat, 03 Apr 2021 06:59:29: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:59:32: 38000000 INFO @ Sat, 03 Apr 2021 06:59:38: 39000000 INFO @ Sat, 03 Apr 2021 06:59:42: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:59:46: 40000000 INFO @ Sat, 03 Apr 2021 06:59:46: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:59:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:59:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.05_summits.bed INFO @ Sat, 03 Apr 2021 06:59:47: Done! pass1 - making usageList (7 chroms): 15 millis pass2 - checking and writing primary data (8141 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:59:52: 41000000 INFO @ Sat, 03 Apr 2021 06:59:53: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:59:53: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:59:53: #1 total tags in treatment: 19171166 INFO @ Sat, 03 Apr 2021 06:59:53: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:59:53: #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 06:59:54: #1 tags after filtering in treatment: 12152580 INFO @ Sat, 03 Apr 2021 06:59:54: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 03 Apr 2021 06:59:54: #1 finished! INFO @ Sat, 03 Apr 2021 06:59:54: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:59:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:59:55: #2 number of paired peaks: 664 WARNING @ Sat, 03 Apr 2021 06:59:55: Fewer paired peaks (664) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 664 pairs to build model! INFO @ Sat, 03 Apr 2021 06:59:55: start model_add_line... INFO @ Sat, 03 Apr 2021 06:59:55: start X-correlation... INFO @ Sat, 03 Apr 2021 06:59:55: end of X-cor INFO @ Sat, 03 Apr 2021 06:59:55: #2 finished! INFO @ Sat, 03 Apr 2021 06:59:55: #2 predicted fragment length is 107 bps INFO @ Sat, 03 Apr 2021 06:59:55: #2 alternative fragment length(s) may be 107 bps INFO @ Sat, 03 Apr 2021 06:59:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.20_model.r INFO @ Sat, 03 Apr 2021 06:59:55: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:59:55: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:59:58: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:59:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:59:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.10_summits.bed INFO @ Sat, 03 Apr 2021 06:59:58: Done! pass1 - making usageList (7 chroms): 10 millis pass2 - checking and writing primary data (5233 records, 4 fields): 7 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:00:24: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:00:40: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:00:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:00:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246268/SRX7246268.20_summits.bed INFO @ Sat, 03 Apr 2021 07:00:41: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (2457 records, 4 fields): 5 millis CompletedMACS2peakCalling BigWig に変換しました。