Job ID = 14519540 SRX = SRX9963436 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 38176665 spots for SRR13565192/SRR13565192.sra Written 38176665 spots for SRR13565192/SRR13565192.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:02 Time loading mirror index: 00:00:01 Multiseed full-index search: 01:30:56 38176665 reads; of these: 38176665 (100.00%) were unpaired; of these: 5254522 (13.76%) aligned 0 times 27361033 (71.67%) aligned exactly 1 time 5561110 (14.57%) aligned >1 times 86.24% overall alignment rate Time searching: 01:31:01 Overall time: 01:31:01 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 953 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 5966117 / 32922143 = 0.1812 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 @ Sat, 15 Jan 2022 17:33:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.bam'] # control file = None # effective genome size = 2.15e+09 # 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, 15 Jan 2022 17:33:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:33:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:33:41: 1000000 INFO @ Sat, 15 Jan 2022 17:33:53: 2000000 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 @ Sat, 15 Jan 2022 17:33:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.bam'] # control file = None # effective genome size = 2.15e+09 # 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, 15 Jan 2022 17:33:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:33:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:34:05: 3000000 INFO @ Sat, 15 Jan 2022 17:34:12: 1000000 INFO @ Sat, 15 Jan 2022 17:34:17: 4000000 INFO @ Sat, 15 Jan 2022 17:34:25: 2000000 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 @ Sat, 15 Jan 2022 17:34:28: 5000000 INFO @ Sat, 15 Jan 2022 17:34:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.bam'] # control file = None # effective genome size = 2.15e+09 # 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, 15 Jan 2022 17:34:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:34:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:34:39: 3000000 INFO @ Sat, 15 Jan 2022 17:34:39: 6000000 INFO @ Sat, 15 Jan 2022 17:34:43: 1000000 INFO @ Sat, 15 Jan 2022 17:34:51: 7000000 INFO @ Sat, 15 Jan 2022 17:34:52: 4000000 INFO @ Sat, 15 Jan 2022 17:34:56: 2000000 INFO @ Sat, 15 Jan 2022 17:35:02: 8000000 INFO @ Sat, 15 Jan 2022 17:35:07: 5000000 INFO @ Sat, 15 Jan 2022 17:35:08: 3000000 INFO @ Sat, 15 Jan 2022 17:35:13: 9000000 INFO @ Sat, 15 Jan 2022 17:35:21: 6000000 INFO @ Sat, 15 Jan 2022 17:35:22: 4000000 INFO @ Sat, 15 Jan 2022 17:35:25: 10000000 INFO @ Sat, 15 Jan 2022 17:35:35: 7000000 INFO @ Sat, 15 Jan 2022 17:35:36: 5000000 INFO @ Sat, 15 Jan 2022 17:35:37: 11000000 INFO @ Sat, 15 Jan 2022 17:35:48: 12000000 INFO @ Sat, 15 Jan 2022 17:35:50: 8000000 INFO @ Sat, 15 Jan 2022 17:35:51: 6000000 INFO @ Sat, 15 Jan 2022 17:36:00: 13000000 INFO @ Sat, 15 Jan 2022 17:36:04: 9000000 INFO @ Sat, 15 Jan 2022 17:36:05: 7000000 INFO @ Sat, 15 Jan 2022 17:36:11: 14000000 INFO @ Sat, 15 Jan 2022 17:36:18: 10000000 INFO @ Sat, 15 Jan 2022 17:36:19: 8000000 INFO @ Sat, 15 Jan 2022 17:36:23: 15000000 INFO @ Sat, 15 Jan 2022 17:36:33: 11000000 INFO @ Sat, 15 Jan 2022 17:36:33: 9000000 INFO @ Sat, 15 Jan 2022 17:36:34: 16000000 INFO @ Sat, 15 Jan 2022 17:36:45: 17000000 INFO @ Sat, 15 Jan 2022 17:36:47: 12000000 INFO @ Sat, 15 Jan 2022 17:36:48: 10000000 INFO @ Sat, 15 Jan 2022 17:36:56: 18000000 INFO @ Sat, 15 Jan 2022 17:37:01: 13000000 INFO @ Sat, 15 Jan 2022 17:37:02: 11000000 INFO @ Sat, 15 Jan 2022 17:37:08: 19000000 INFO @ Sat, 15 Jan 2022 17:37:15: 14000000 INFO @ Sat, 15 Jan 2022 17:37:16: 12000000 INFO @ Sat, 15 Jan 2022 17:37:19: 20000000 INFO @ Sat, 15 Jan 2022 17:37:29: 15000000 INFO @ Sat, 15 Jan 2022 17:37:30: 21000000 INFO @ Sat, 15 Jan 2022 17:37:30: 13000000 INFO @ Sat, 15 Jan 2022 17:37:41: 22000000 INFO @ Sat, 15 Jan 2022 17:37:42: 16000000 INFO @ Sat, 15 Jan 2022 17:37:44: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:37:52: 23000000 INFO @ Sat, 15 Jan 2022 17:37:56: 17000000 INFO @ Sat, 15 Jan 2022 17:37:58: 15000000 INFO @ Sat, 15 Jan 2022 17:38:04: 24000000 INFO @ Sat, 15 Jan 2022 17:38:10: 18000000 INFO @ Sat, 15 Jan 2022 17:38:12: 16000000 INFO @ Sat, 15 Jan 2022 17:38:15: 25000000 INFO @ Sat, 15 Jan 2022 17:38:23: 19000000 INFO @ Sat, 15 Jan 2022 17:38:25: 17000000 INFO @ Sat, 15 Jan 2022 17:38:26: 26000000 INFO @ Sat, 15 Jan 2022 17:38:37: 20000000 INFO @ Sat, 15 Jan 2022 17:38:37: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 17:38:37: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 17:38:37: #1 total tags in treatment: 26956026 INFO @ Sat, 15 Jan 2022 17:38:37: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:38:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 17:38:38: #1 tags after filtering in treatment: 26955877 INFO @ Sat, 15 Jan 2022 17:38:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:38:38: #1 finished! INFO @ Sat, 15 Jan 2022 17:38:38: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:38:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:38:39: 18000000 INFO @ Sat, 15 Jan 2022 17:38:44: #2 number of paired peaks: 72362 INFO @ Sat, 15 Jan 2022 17:38:44: start model_add_line... INFO @ Sat, 15 Jan 2022 17:38:44: start X-correlation... INFO @ Sat, 15 Jan 2022 17:38:45: end of X-cor INFO @ Sat, 15 Jan 2022 17:38:45: #2 finished! INFO @ Sat, 15 Jan 2022 17:38:45: #2 predicted fragment length is 192 bps INFO @ Sat, 15 Jan 2022 17:38:45: #2 alternative fragment length(s) may be 4,192 bps INFO @ Sat, 15 Jan 2022 17:38:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.05_model.r INFO @ Sat, 15 Jan 2022 17:38:45: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:38:45: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:38:50: 21000000 INFO @ Sat, 15 Jan 2022 17:38:52: 19000000 INFO @ Sat, 15 Jan 2022 17:39:04: 22000000 INFO @ Sat, 15 Jan 2022 17:39:05: 20000000 INFO @ Sat, 15 Jan 2022 17:39:17: 23000000 INFO @ Sat, 15 Jan 2022 17:39:19: 21000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:39:31: 24000000 INFO @ Sat, 15 Jan 2022 17:39:32: 22000000 INFO @ Sat, 15 Jan 2022 17:39:44: 25000000 INFO @ Sat, 15 Jan 2022 17:39:46: 23000000 INFO @ Sat, 15 Jan 2022 17:39:58: 26000000 INFO @ Sat, 15 Jan 2022 17:40:00: 24000000 INFO @ Sat, 15 Jan 2022 17:40:11: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 17:40:11: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 17:40:11: #1 total tags in treatment: 26956026 INFO @ Sat, 15 Jan 2022 17:40:11: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:40:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 17:40:12: #1 tags after filtering in treatment: 26955877 INFO @ Sat, 15 Jan 2022 17:40:12: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:40:12: #1 finished! INFO @ Sat, 15 Jan 2022 17:40:12: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:40:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:40:13: 25000000 INFO @ Sat, 15 Jan 2022 17:40:18: #2 number of paired peaks: 72362 INFO @ Sat, 15 Jan 2022 17:40:18: start model_add_line... INFO @ Sat, 15 Jan 2022 17:40:18: start X-correlation... INFO @ Sat, 15 Jan 2022 17:40:18: end of X-cor INFO @ Sat, 15 Jan 2022 17:40:18: #2 finished! INFO @ Sat, 15 Jan 2022 17:40:18: #2 predicted fragment length is 192 bps INFO @ Sat, 15 Jan 2022 17:40:18: #2 alternative fragment length(s) may be 4,192 bps INFO @ Sat, 15 Jan 2022 17:40:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.10_model.r INFO @ Sat, 15 Jan 2022 17:40:19: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:40:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:40:19: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:40:27: 26000000 INFO @ Sat, 15 Jan 2022 17:40:39: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 17:40:39: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 17:40:39: #1 total tags in treatment: 26956026 INFO @ Sat, 15 Jan 2022 17:40:39: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:40:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 17:40:40: #1 tags after filtering in treatment: 26955877 INFO @ Sat, 15 Jan 2022 17:40:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:40:40: #1 finished! INFO @ Sat, 15 Jan 2022 17:40:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:40:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:40:46: #2 number of paired peaks: 72362 INFO @ Sat, 15 Jan 2022 17:40:46: start model_add_line... INFO @ Sat, 15 Jan 2022 17:40:47: start X-correlation... INFO @ Sat, 15 Jan 2022 17:40:47: end of X-cor INFO @ Sat, 15 Jan 2022 17:40:47: #2 finished! INFO @ Sat, 15 Jan 2022 17:40:47: #2 predicted fragment length is 192 bps INFO @ Sat, 15 Jan 2022 17:40:47: #2 alternative fragment length(s) may be 4,192 bps INFO @ Sat, 15 Jan 2022 17:40:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.20_model.r INFO @ Sat, 15 Jan 2022 17:40:47: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:40:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:41:14: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.05_peaks.xls INFO @ Sat, 15 Jan 2022 17:41:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:41:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.05_summits.bed INFO @ Sat, 15 Jan 2022 17:41:14: Done! pass1 - making usageList (96 chroms): 2 millis pass2 - checking and writing primary data (9424 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:41:52: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:42:21: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:42:42: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.10_peaks.xls INFO @ Sat, 15 Jan 2022 17:42:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:42:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.10_summits.bed INFO @ Sat, 15 Jan 2022 17:42:42: Done! pass1 - making usageList (85 chroms): 3 millis pass2 - checking and writing primary data (4764 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:43:12: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.20_peaks.xls INFO @ Sat, 15 Jan 2022 17:43:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:43:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9963436/SRX9963436.20_summits.bed INFO @ Sat, 15 Jan 2022 17:43:12: Done! pass1 - making usageList (61 chroms): 1 millis pass2 - checking and writing primary data (1959 records, 4 fields): 50 millis CompletedMACS2peakCalling