Job ID = 16439840 SRX = SRX14237853 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:11:09 32138058 reads; of these: 32138058 (100.00%) were unpaired; of these: 1731105 (5.39%) aligned 0 times 24951643 (77.64%) aligned exactly 1 time 5455310 (16.97%) aligned >1 times 94.61% overall alignment rate Time searching: 00:11:10 Overall time: 00:11:10 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 5623964 / 30406953 = 0.1850 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:38:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 02 Aug 2022 16:38:10: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:38:10: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:38:16: 1000000 INFO @ Tue, 02 Aug 2022 16:38:22: 2000000 INFO @ Tue, 02 Aug 2022 16:38:28: 3000000 INFO @ Tue, 02 Aug 2022 16:38:34: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:38:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 02 Aug 2022 16:38:40: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:38:40: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:38:40: 5000000 INFO @ Tue, 02 Aug 2022 16:38:47: 6000000 INFO @ Tue, 02 Aug 2022 16:38:48: 1000000 INFO @ Tue, 02 Aug 2022 16:38:54: 7000000 INFO @ Tue, 02 Aug 2022 16:38:55: 2000000 INFO @ Tue, 02 Aug 2022 16:39:01: 8000000 INFO @ Tue, 02 Aug 2022 16:39:03: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:39:08: 9000000 INFO @ Tue, 02 Aug 2022 16:39:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 02 Aug 2022 16:39:10: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:39:10: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:39:10: 4000000 INFO @ Tue, 02 Aug 2022 16:39:15: 10000000 INFO @ Tue, 02 Aug 2022 16:39:17: 5000000 INFO @ Tue, 02 Aug 2022 16:39:18: 1000000 INFO @ Tue, 02 Aug 2022 16:39:22: 11000000 INFO @ Tue, 02 Aug 2022 16:39:24: 6000000 INFO @ Tue, 02 Aug 2022 16:39:25: 2000000 INFO @ Tue, 02 Aug 2022 16:39:30: 12000000 INFO @ Tue, 02 Aug 2022 16:39:31: 7000000 INFO @ Tue, 02 Aug 2022 16:39:33: 3000000 INFO @ Tue, 02 Aug 2022 16:39:37: 13000000 INFO @ Tue, 02 Aug 2022 16:39:38: 8000000 INFO @ Tue, 02 Aug 2022 16:39:41: 4000000 INFO @ Tue, 02 Aug 2022 16:39:44: 14000000 INFO @ Tue, 02 Aug 2022 16:39:45: 9000000 INFO @ Tue, 02 Aug 2022 16:39:48: 5000000 INFO @ Tue, 02 Aug 2022 16:39:51: 15000000 INFO @ Tue, 02 Aug 2022 16:39:52: 10000000 INFO @ Tue, 02 Aug 2022 16:39:54: 6000000 INFO @ Tue, 02 Aug 2022 16:39:58: 16000000 INFO @ Tue, 02 Aug 2022 16:39:58: 11000000 INFO @ Tue, 02 Aug 2022 16:40:01: 7000000 INFO @ Tue, 02 Aug 2022 16:40:05: 17000000 INFO @ Tue, 02 Aug 2022 16:40:06: 12000000 INFO @ Tue, 02 Aug 2022 16:40:08: 8000000 INFO @ Tue, 02 Aug 2022 16:40:12: 18000000 INFO @ Tue, 02 Aug 2022 16:40:12: 13000000 INFO @ Tue, 02 Aug 2022 16:40:15: 9000000 INFO @ Tue, 02 Aug 2022 16:40:19: 19000000 INFO @ Tue, 02 Aug 2022 16:40:19: 14000000 INFO @ Tue, 02 Aug 2022 16:40:22: 10000000 INFO @ Tue, 02 Aug 2022 16:40:26: 20000000 INFO @ Tue, 02 Aug 2022 16:40:26: 15000000 INFO @ Tue, 02 Aug 2022 16:40:28: 11000000 INFO @ Tue, 02 Aug 2022 16:40:32: 16000000 INFO @ Tue, 02 Aug 2022 16:40:33: 21000000 INFO @ Tue, 02 Aug 2022 16:40:35: 12000000 INFO @ Tue, 02 Aug 2022 16:40:39: 17000000 INFO @ Tue, 02 Aug 2022 16:40:40: 22000000 INFO @ Tue, 02 Aug 2022 16:40:42: 13000000 INFO @ Tue, 02 Aug 2022 16:40:46: 18000000 INFO @ Tue, 02 Aug 2022 16:40:46: 23000000 INFO @ Tue, 02 Aug 2022 16:40:49: 14000000 INFO @ Tue, 02 Aug 2022 16:40:52: 19000000 INFO @ Tue, 02 Aug 2022 16:40:53: 24000000 INFO @ Tue, 02 Aug 2022 16:40:55: 15000000 INFO @ Tue, 02 Aug 2022 16:40:59: 20000000 INFO @ Tue, 02 Aug 2022 16:40:59: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:40:59: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:40:59: #1 total tags in treatment: 24782989 INFO @ Tue, 02 Aug 2022 16:40:59: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:40:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:40:59: #1 tags after filtering in treatment: 24782986 INFO @ Tue, 02 Aug 2022 16:40:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:40:59: #1 finished! INFO @ Tue, 02 Aug 2022 16:40:59: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:40:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:41:01: #2 number of paired peaks: 1409 INFO @ Tue, 02 Aug 2022 16:41:01: start model_add_line... INFO @ Tue, 02 Aug 2022 16:41:01: start X-correlation... INFO @ Tue, 02 Aug 2022 16:41:01: end of X-cor INFO @ Tue, 02 Aug 2022 16:41:01: #2 finished! INFO @ Tue, 02 Aug 2022 16:41:01: #2 predicted fragment length is 216 bps INFO @ Tue, 02 Aug 2022 16:41:01: #2 alternative fragment length(s) may be 216 bps INFO @ Tue, 02 Aug 2022 16:41:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.05_model.r INFO @ Tue, 02 Aug 2022 16:41:01: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:41:01: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:41:02: 16000000 INFO @ Tue, 02 Aug 2022 16:41:06: 21000000 INFO @ Tue, 02 Aug 2022 16:41:09: 17000000 INFO @ Tue, 02 Aug 2022 16:41:13: 22000000 INFO @ Tue, 02 Aug 2022 16:41:15: 18000000 INFO @ Tue, 02 Aug 2022 16:41:19: 23000000 INFO @ Tue, 02 Aug 2022 16:41:22: 19000000 INFO @ Tue, 02 Aug 2022 16:41:26: 24000000 INFO @ Tue, 02 Aug 2022 16:41:29: 20000000 INFO @ Tue, 02 Aug 2022 16:41:32: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:41:32: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:41:32: #1 total tags in treatment: 24782989 INFO @ Tue, 02 Aug 2022 16:41:32: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:41:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:41:32: #1 tags after filtering in treatment: 24782986 INFO @ Tue, 02 Aug 2022 16:41:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:41:32: #1 finished! INFO @ Tue, 02 Aug 2022 16:41:32: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:41:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:41:34: #2 number of paired peaks: 1409 INFO @ Tue, 02 Aug 2022 16:41:34: start model_add_line... INFO @ Tue, 02 Aug 2022 16:41:34: start X-correlation... INFO @ Tue, 02 Aug 2022 16:41:34: end of X-cor INFO @ Tue, 02 Aug 2022 16:41:34: #2 finished! INFO @ Tue, 02 Aug 2022 16:41:34: #2 predicted fragment length is 216 bps INFO @ Tue, 02 Aug 2022 16:41:34: #2 alternative fragment length(s) may be 216 bps INFO @ Tue, 02 Aug 2022 16:41:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.10_model.r INFO @ Tue, 02 Aug 2022 16:41:34: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:41:34: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:41:36: 21000000 INFO @ Tue, 02 Aug 2022 16:41:42: 22000000 INFO @ Tue, 02 Aug 2022 16:41:48: 23000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:41:55: 24000000 INFO @ Tue, 02 Aug 2022 16:41:57: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:42:00: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:42:00: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:42:00: #1 total tags in treatment: 24782989 INFO @ Tue, 02 Aug 2022 16:42:00: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:42:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:42:01: #1 tags after filtering in treatment: 24782986 INFO @ Tue, 02 Aug 2022 16:42:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:42:01: #1 finished! INFO @ Tue, 02 Aug 2022 16:42:01: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:42:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:42:02: #2 number of paired peaks: 1409 INFO @ Tue, 02 Aug 2022 16:42:02: start model_add_line... INFO @ Tue, 02 Aug 2022 16:42:03: start X-correlation... INFO @ Tue, 02 Aug 2022 16:42:03: end of X-cor INFO @ Tue, 02 Aug 2022 16:42:03: #2 finished! INFO @ Tue, 02 Aug 2022 16:42:03: #2 predicted fragment length is 216 bps INFO @ Tue, 02 Aug 2022 16:42:03: #2 alternative fragment length(s) may be 216 bps INFO @ Tue, 02 Aug 2022 16:42:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.20_model.r INFO @ Tue, 02 Aug 2022 16:42:03: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:42:03: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:42:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.05_peaks.xls INFO @ Tue, 02 Aug 2022 16:42:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:42:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.05_summits.bed INFO @ Tue, 02 Aug 2022 16:42:23: Done! pass1 - making usageList (551 chroms): 2 millis pass2 - checking and writing primary data (7869 records, 4 fields): 48 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:42:29: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:42:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.10_peaks.xls INFO @ Tue, 02 Aug 2022 16:42:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:42:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.10_summits.bed INFO @ Tue, 02 Aug 2022 16:42:54: Done! pass1 - making usageList (436 chroms): 2 millis pass2 - checking and writing primary data (6324 records, 4 fields): 34 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:42:57: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:43:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.20_peaks.xls INFO @ Tue, 02 Aug 2022 16:43:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:43:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14237853/SRX14237853.20_summits.bed INFO @ Tue, 02 Aug 2022 16:43:22: Done! pass1 - making usageList (289 chroms): 1 millis pass2 - checking and writing primary data (4591 records, 4 fields): 31 millis CompletedMACS2peakCalling