Job ID = 14167563 SRX = SRX4712932 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: 00:10:16 44306640 reads; of these: 44306640 (100.00%) were unpaired; of these: 1462095 (3.30%) aligned 0 times 35886207 (81.00%) aligned exactly 1 time 6958338 (15.70%) aligned >1 times 96.70% overall alignment rate Time searching: 00:10:16 Overall time: 00:10:16 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 20 files... [bam_rmdupse_core] 15138308 / 42844545 = 0.3533 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 @ Fri, 10 Dec 2021 12:56:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.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 @ Fri, 10 Dec 2021 12:56:19: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:56:19: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:56:26: 1000000 INFO @ Fri, 10 Dec 2021 12:56:33: 2000000 INFO @ Fri, 10 Dec 2021 12:56:39: 3000000 INFO @ Fri, 10 Dec 2021 12:56:46: 4000000 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 @ Fri, 10 Dec 2021 12:56:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.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 @ Fri, 10 Dec 2021 12:56:49: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:56:49: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:56:53: 5000000 INFO @ Fri, 10 Dec 2021 12:56:56: 1000000 INFO @ Fri, 10 Dec 2021 12:57:00: 6000000 INFO @ Fri, 10 Dec 2021 12:57:03: 2000000 INFO @ Fri, 10 Dec 2021 12:57:08: 7000000 INFO @ Fri, 10 Dec 2021 12:57:11: 3000000 INFO @ Fri, 10 Dec 2021 12:57:15: 8000000 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 @ Fri, 10 Dec 2021 12:57:18: 4000000 INFO @ Fri, 10 Dec 2021 12:57:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.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 @ Fri, 10 Dec 2021 12:57:19: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:57:19: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:57:22: 9000000 INFO @ Fri, 10 Dec 2021 12:57:25: 5000000 INFO @ Fri, 10 Dec 2021 12:57:26: 1000000 INFO @ Fri, 10 Dec 2021 12:57:30: 10000000 INFO @ Fri, 10 Dec 2021 12:57:32: 6000000 INFO @ Fri, 10 Dec 2021 12:57:32: 2000000 INFO @ Fri, 10 Dec 2021 12:57:37: 11000000 INFO @ Fri, 10 Dec 2021 12:57:39: 3000000 INFO @ Fri, 10 Dec 2021 12:57:40: 7000000 INFO @ Fri, 10 Dec 2021 12:57:44: 12000000 INFO @ Fri, 10 Dec 2021 12:57:46: 4000000 INFO @ Fri, 10 Dec 2021 12:57:47: 8000000 INFO @ Fri, 10 Dec 2021 12:57:52: 13000000 INFO @ Fri, 10 Dec 2021 12:57:53: 5000000 INFO @ Fri, 10 Dec 2021 12:57:54: 9000000 INFO @ Fri, 10 Dec 2021 12:57:59: 6000000 INFO @ Fri, 10 Dec 2021 12:57:59: 14000000 INFO @ Fri, 10 Dec 2021 12:58:02: 10000000 INFO @ Fri, 10 Dec 2021 12:58:06: 7000000 INFO @ Fri, 10 Dec 2021 12:58:07: 15000000 INFO @ Fri, 10 Dec 2021 12:58:09: 11000000 INFO @ Fri, 10 Dec 2021 12:58:13: 8000000 INFO @ Fri, 10 Dec 2021 12:58:14: 16000000 INFO @ Fri, 10 Dec 2021 12:58:17: 12000000 INFO @ Fri, 10 Dec 2021 12:58:20: 9000000 INFO @ Fri, 10 Dec 2021 12:58:22: 17000000 INFO @ Fri, 10 Dec 2021 12:58:24: 13000000 INFO @ Fri, 10 Dec 2021 12:58:26: 10000000 INFO @ Fri, 10 Dec 2021 12:58:29: 18000000 INFO @ Fri, 10 Dec 2021 12:58:31: 14000000 INFO @ Fri, 10 Dec 2021 12:58:33: 11000000 INFO @ Fri, 10 Dec 2021 12:58:37: 19000000 INFO @ Fri, 10 Dec 2021 12:58:39: 15000000 INFO @ Fri, 10 Dec 2021 12:58:40: 12000000 INFO @ Fri, 10 Dec 2021 12:58:45: 20000000 INFO @ Fri, 10 Dec 2021 12:58:46: 16000000 INFO @ Fri, 10 Dec 2021 12:58:47: 13000000 INFO @ Fri, 10 Dec 2021 12:58:52: 21000000 INFO @ Fri, 10 Dec 2021 12:58:54: 17000000 INFO @ Fri, 10 Dec 2021 12:58:54: 14000000 INFO @ Fri, 10 Dec 2021 12:58:59: 22000000 INFO @ Fri, 10 Dec 2021 12:59:01: 15000000 INFO @ Fri, 10 Dec 2021 12:59:01: 18000000 INFO @ Fri, 10 Dec 2021 12:59:07: 23000000 INFO @ Fri, 10 Dec 2021 12:59:08: 16000000 INFO @ Fri, 10 Dec 2021 12:59:09: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:59:15: 17000000 INFO @ Fri, 10 Dec 2021 12:59:15: 24000000 INFO @ Fri, 10 Dec 2021 12:59:16: 20000000 INFO @ Fri, 10 Dec 2021 12:59:21: 18000000 INFO @ Fri, 10 Dec 2021 12:59:22: 25000000 INFO @ Fri, 10 Dec 2021 12:59:23: 21000000 INFO @ Fri, 10 Dec 2021 12:59:28: 19000000 INFO @ Fri, 10 Dec 2021 12:59:30: 26000000 INFO @ Fri, 10 Dec 2021 12:59:31: 22000000 INFO @ Fri, 10 Dec 2021 12:59:35: 20000000 INFO @ Fri, 10 Dec 2021 12:59:37: 27000000 INFO @ Fri, 10 Dec 2021 12:59:38: 23000000 INFO @ Fri, 10 Dec 2021 12:59:42: 21000000 INFO @ Fri, 10 Dec 2021 12:59:43: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:59:43: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:59:43: #1 total tags in treatment: 27706237 INFO @ Fri, 10 Dec 2021 12:59:43: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:59:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:59:44: #1 tags after filtering in treatment: 27706237 INFO @ Fri, 10 Dec 2021 12:59:44: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:59:44: #1 finished! INFO @ Fri, 10 Dec 2021 12:59:44: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:59:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:59:46: #2 number of paired peaks: 723 WARNING @ Fri, 10 Dec 2021 12:59:46: Fewer paired peaks (723) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 723 pairs to build model! INFO @ Fri, 10 Dec 2021 12:59:46: start model_add_line... INFO @ Fri, 10 Dec 2021 12:59:46: start X-correlation... INFO @ Fri, 10 Dec 2021 12:59:46: end of X-cor INFO @ Fri, 10 Dec 2021 12:59:46: #2 finished! INFO @ Fri, 10 Dec 2021 12:59:46: #2 predicted fragment length is 114 bps INFO @ Fri, 10 Dec 2021 12:59:46: #2 alternative fragment length(s) may be 114 bps INFO @ Fri, 10 Dec 2021 12:59:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.05_model.r INFO @ Fri, 10 Dec 2021 12:59:46: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:59:46: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:59:46: 24000000 INFO @ Fri, 10 Dec 2021 12:59:49: 22000000 INFO @ Fri, 10 Dec 2021 12:59:53: 25000000 INFO @ Fri, 10 Dec 2021 12:59:56: 23000000 INFO @ Fri, 10 Dec 2021 13:00:00: 26000000 INFO @ Fri, 10 Dec 2021 13:00:02: 24000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 13:00:07: 27000000 INFO @ Fri, 10 Dec 2021 13:00:09: 25000000 INFO @ Fri, 10 Dec 2021 13:00:13: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 13:00:13: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 13:00:13: #1 total tags in treatment: 27706237 INFO @ Fri, 10 Dec 2021 13:00:13: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 13:00:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 13:00:13: #1 tags after filtering in treatment: 27706237 INFO @ Fri, 10 Dec 2021 13:00:13: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 13:00:13: #1 finished! INFO @ Fri, 10 Dec 2021 13:00:13: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 13:00:13: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 13:00:15: #2 number of paired peaks: 723 WARNING @ Fri, 10 Dec 2021 13:00:15: Fewer paired peaks (723) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 723 pairs to build model! INFO @ Fri, 10 Dec 2021 13:00:15: start model_add_line... INFO @ Fri, 10 Dec 2021 13:00:15: 26000000 INFO @ Fri, 10 Dec 2021 13:00:15: start X-correlation... INFO @ Fri, 10 Dec 2021 13:00:15: end of X-cor INFO @ Fri, 10 Dec 2021 13:00:15: #2 finished! INFO @ Fri, 10 Dec 2021 13:00:15: #2 predicted fragment length is 114 bps INFO @ Fri, 10 Dec 2021 13:00:15: #2 alternative fragment length(s) may be 114 bps INFO @ Fri, 10 Dec 2021 13:00:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.10_model.r INFO @ Fri, 10 Dec 2021 13:00:15: #3 Call peaks... INFO @ Fri, 10 Dec 2021 13:00:15: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 13:00:21: 27000000 INFO @ Fri, 10 Dec 2021 13:00:25: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 13:00:25: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 13:00:25: #1 total tags in treatment: 27706237 INFO @ Fri, 10 Dec 2021 13:00:25: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 13:00:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 13:00:26: #1 tags after filtering in treatment: 27706237 INFO @ Fri, 10 Dec 2021 13:00:26: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 13:00:26: #1 finished! INFO @ Fri, 10 Dec 2021 13:00:26: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 13:00:26: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 13:00:28: #2 number of paired peaks: 723 WARNING @ Fri, 10 Dec 2021 13:00:28: Fewer paired peaks (723) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 723 pairs to build model! INFO @ Fri, 10 Dec 2021 13:00:28: start model_add_line... INFO @ Fri, 10 Dec 2021 13:00:28: start X-correlation... INFO @ Fri, 10 Dec 2021 13:00:28: end of X-cor INFO @ Fri, 10 Dec 2021 13:00:28: #2 finished! INFO @ Fri, 10 Dec 2021 13:00:28: #2 predicted fragment length is 114 bps INFO @ Fri, 10 Dec 2021 13:00:28: #2 alternative fragment length(s) may be 114 bps INFO @ Fri, 10 Dec 2021 13:00:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.20_model.r INFO @ Fri, 10 Dec 2021 13:00:28: #3 Call peaks... INFO @ Fri, 10 Dec 2021 13:00:28: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 13:00:41: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 13:01:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.05_peaks.xls INFO @ Fri, 10 Dec 2021 13:01:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 13:01:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.05_summits.bed INFO @ Fri, 10 Dec 2021 13:01:09: Done! pass1 - making usageList (613 chroms): 2 millis pass2 - checking and writing primary data (12110 records, 4 fields): 29 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 13:01:10: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 13:01:22: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 13:01:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.10_peaks.xls INFO @ Fri, 10 Dec 2021 13:01:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 13:01:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.10_summits.bed INFO @ Fri, 10 Dec 2021 13:01:38: Done! pass1 - making usageList (510 chroms): 2 millis pass2 - checking and writing primary data (8776 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 13:01:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.20_peaks.xls INFO @ Fri, 10 Dec 2021 13:01:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 13:01:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712932/SRX4712932.20_summits.bed INFO @ Fri, 10 Dec 2021 13:01:48: Done! pass1 - making usageList (298 chroms): 2 millis pass2 - checking and writing primary data (5765 records, 4 fields): 15 millis CompletedMACS2peakCalling