Job ID = 14171155 SRX = SRX9986103 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 30277999 spots for SRR13591497/SRR13591497.sra Written 30277999 spots for SRR13591497/SRR13591497.sra fastq に変換しました。 bowtie でマッピング中... Your job 14171637 ("srTdm6") 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: 00:10:19 30277999 reads; of these: 30277999 (100.00%) were unpaired; of these: 1248502 (4.12%) aligned 0 times 18145228 (59.93%) aligned exactly 1 time 10884269 (35.95%) aligned >1 times 95.88% overall alignment rate Time searching: 00:10:19 Overall time: 00:10:19 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 9818980 / 29029497 = 0.3382 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, 11 Dec 2021 10:27:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.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 @ Sat, 11 Dec 2021 10:27:52: #1 read tag files... INFO @ Sat, 11 Dec 2021 10:27:52: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 10:28:00: 1000000 INFO @ Sat, 11 Dec 2021 10:28:07: 2000000 INFO @ Sat, 11 Dec 2021 10:28:14: 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 @ Sat, 11 Dec 2021 10:28:22: 4000000 INFO @ Sat, 11 Dec 2021 10:28:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.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 @ Sat, 11 Dec 2021 10:28:22: #1 read tag files... INFO @ Sat, 11 Dec 2021 10:28:22: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 10:28:29: 1000000 INFO @ Sat, 11 Dec 2021 10:28:30: 5000000 INFO @ Sat, 11 Dec 2021 10:28:37: 2000000 INFO @ Sat, 11 Dec 2021 10:28:39: 6000000 INFO @ Sat, 11 Dec 2021 10:28:44: 3000000 INFO @ Sat, 11 Dec 2021 10:28:48: 7000000 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, 11 Dec 2021 10:28:52: 4000000 INFO @ Sat, 11 Dec 2021 10:28:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.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 @ Sat, 11 Dec 2021 10:28:52: #1 read tag files... INFO @ Sat, 11 Dec 2021 10:28:52: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 10:28:56: 8000000 INFO @ Sat, 11 Dec 2021 10:28:59: 5000000 INFO @ Sat, 11 Dec 2021 10:28:59: 1000000 INFO @ Sat, 11 Dec 2021 10:29:05: 9000000 INFO @ Sat, 11 Dec 2021 10:29:07: 6000000 INFO @ Sat, 11 Dec 2021 10:29:07: 2000000 INFO @ Sat, 11 Dec 2021 10:29:14: 10000000 INFO @ Sat, 11 Dec 2021 10:29:14: 7000000 INFO @ Sat, 11 Dec 2021 10:29:14: 3000000 INFO @ Sat, 11 Dec 2021 10:29:22: 4000000 INFO @ Sat, 11 Dec 2021 10:29:22: 8000000 INFO @ Sat, 11 Dec 2021 10:29:22: 11000000 INFO @ Sat, 11 Dec 2021 10:29:29: 5000000 INFO @ Sat, 11 Dec 2021 10:29:29: 9000000 INFO @ Sat, 11 Dec 2021 10:29:31: 12000000 INFO @ Sat, 11 Dec 2021 10:29:36: 6000000 INFO @ Sat, 11 Dec 2021 10:29:37: 10000000 INFO @ Sat, 11 Dec 2021 10:29:40: 13000000 INFO @ Sat, 11 Dec 2021 10:29:44: 7000000 INFO @ Sat, 11 Dec 2021 10:29:44: 11000000 INFO @ Sat, 11 Dec 2021 10:29:48: 14000000 INFO @ Sat, 11 Dec 2021 10:29:51: 8000000 INFO @ Sat, 11 Dec 2021 10:29:52: 12000000 INFO @ Sat, 11 Dec 2021 10:29:57: 15000000 INFO @ Sat, 11 Dec 2021 10:29:59: 9000000 INFO @ Sat, 11 Dec 2021 10:29:59: 13000000 INFO @ Sat, 11 Dec 2021 10:30:06: 16000000 INFO @ Sat, 11 Dec 2021 10:30:06: 10000000 INFO @ Sat, 11 Dec 2021 10:30:06: 14000000 INFO @ Sat, 11 Dec 2021 10:30:14: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 10:30:14: 15000000 INFO @ Sat, 11 Dec 2021 10:30:14: 17000000 INFO @ Sat, 11 Dec 2021 10:30:21: 12000000 INFO @ Sat, 11 Dec 2021 10:30:21: 16000000 INFO @ Sat, 11 Dec 2021 10:30:23: 18000000 INFO @ Sat, 11 Dec 2021 10:30:28: 13000000 INFO @ Sat, 11 Dec 2021 10:30:29: 17000000 INFO @ Sat, 11 Dec 2021 10:30:32: 19000000 INFO @ Sat, 11 Dec 2021 10:30:33: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 10:30:33: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 10:30:33: #1 total tags in treatment: 19210517 INFO @ Sat, 11 Dec 2021 10:30:33: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:30:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 10:30:34: #1 tags after filtering in treatment: 19210517 INFO @ Sat, 11 Dec 2021 10:30:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 10:30:34: #1 finished! INFO @ Sat, 11 Dec 2021 10:30:34: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:30:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 10:30:35: #2 number of paired peaks: 192 WARNING @ Sat, 11 Dec 2021 10:30:35: Fewer paired peaks (192) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 192 pairs to build model! INFO @ Sat, 11 Dec 2021 10:30:35: start model_add_line... INFO @ Sat, 11 Dec 2021 10:30:35: start X-correlation... INFO @ Sat, 11 Dec 2021 10:30:35: end of X-cor INFO @ Sat, 11 Dec 2021 10:30:35: #2 finished! INFO @ Sat, 11 Dec 2021 10:30:35: #2 predicted fragment length is 150 bps INFO @ Sat, 11 Dec 2021 10:30:35: #2 alternative fragment length(s) may be 4,150,598 bps INFO @ Sat, 11 Dec 2021 10:30:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.05_model.r INFO @ Sat, 11 Dec 2021 10:30:35: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:30:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:30:36: 14000000 INFO @ Sat, 11 Dec 2021 10:30:37: 18000000 INFO @ Sat, 11 Dec 2021 10:30:43: 15000000 INFO @ Sat, 11 Dec 2021 10:30:44: 19000000 INFO @ Sat, 11 Dec 2021 10:30:45: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 10:30:45: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 10:30:45: #1 total tags in treatment: 19210517 INFO @ Sat, 11 Dec 2021 10:30:45: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:30:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 10:30:46: #1 tags after filtering in treatment: 19210517 INFO @ Sat, 11 Dec 2021 10:30:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 10:30:46: #1 finished! INFO @ Sat, 11 Dec 2021 10:30:46: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:30:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 10:30:47: #2 number of paired peaks: 192 WARNING @ Sat, 11 Dec 2021 10:30:47: Fewer paired peaks (192) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 192 pairs to build model! INFO @ Sat, 11 Dec 2021 10:30:47: start model_add_line... INFO @ Sat, 11 Dec 2021 10:30:47: start X-correlation... INFO @ Sat, 11 Dec 2021 10:30:47: end of X-cor INFO @ Sat, 11 Dec 2021 10:30:47: #2 finished! INFO @ Sat, 11 Dec 2021 10:30:47: #2 predicted fragment length is 150 bps INFO @ Sat, 11 Dec 2021 10:30:47: #2 alternative fragment length(s) may be 4,150,598 bps INFO @ Sat, 11 Dec 2021 10:30:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.10_model.r INFO @ Sat, 11 Dec 2021 10:30:47: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:30:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:30:50: 16000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 10:30:56: 17000000 INFO @ Sat, 11 Dec 2021 10:31:03: 18000000 INFO @ Sat, 11 Dec 2021 10:31:09: 19000000 INFO @ Sat, 11 Dec 2021 10:31:10: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 10:31:10: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 10:31:10: #1 total tags in treatment: 19210517 INFO @ Sat, 11 Dec 2021 10:31:10: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:31:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 10:31:11: #1 tags after filtering in treatment: 19210517 INFO @ Sat, 11 Dec 2021 10:31:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 10:31:11: #1 finished! INFO @ Sat, 11 Dec 2021 10:31:11: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:31:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 10:31:12: #2 number of paired peaks: 192 WARNING @ Sat, 11 Dec 2021 10:31:12: Fewer paired peaks (192) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 192 pairs to build model! INFO @ Sat, 11 Dec 2021 10:31:12: start model_add_line... INFO @ Sat, 11 Dec 2021 10:31:12: start X-correlation... INFO @ Sat, 11 Dec 2021 10:31:12: end of X-cor INFO @ Sat, 11 Dec 2021 10:31:12: #2 finished! INFO @ Sat, 11 Dec 2021 10:31:12: #2 predicted fragment length is 150 bps INFO @ Sat, 11 Dec 2021 10:31:12: #2 alternative fragment length(s) may be 4,150,598 bps INFO @ Sat, 11 Dec 2021 10:31:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.20_model.r INFO @ Sat, 11 Dec 2021 10:31:12: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:31:12: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:31:13: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:31:24: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:31:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.05_peaks.xls INFO @ Sat, 11 Dec 2021 10:31:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:31:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.05_summits.bed INFO @ Sat, 11 Dec 2021 10:31:32: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (11960 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 10:31:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.10_peaks.xls INFO @ Sat, 11 Dec 2021 10:31:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:31:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.10_summits.bed INFO @ Sat, 11 Dec 2021 10:31:43: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2730 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 10:31:49: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:32:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.20_peaks.xls INFO @ Sat, 11 Dec 2021 10:32:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:32:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9986103/SRX9986103.20_summits.bed INFO @ Sat, 11 Dec 2021 10:32:08: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (793 records, 4 fields): 5 millis CompletedMACS2peakCalling