Job ID = 6530094 SRX = SRX815529 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: 00:07:42 32988934 reads; of these: 32988934 (100.00%) were unpaired; of these: 2756400 (8.36%) aligned 0 times 23762371 (72.03%) aligned exactly 1 time 6470163 (19.61%) aligned >1 times 91.64% overall alignment rate Time searching: 00:07:42 Overall time: 00:07:42 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] 6832823 / 30232534 = 0.2260 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 03:29:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.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, 30 Jun 2020 03:29:28: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:29:28: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:29:34: 1000000 INFO @ Tue, 30 Jun 2020 03:29:39: 2000000 INFO @ Tue, 30 Jun 2020 03:29:45: 3000000 INFO @ Tue, 30 Jun 2020 03:29:51: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 03:29:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.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, 30 Jun 2020 03:29:55: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:29:55: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:29:57: 5000000 INFO @ Tue, 30 Jun 2020 03:30:02: 1000000 INFO @ Tue, 30 Jun 2020 03:30:03: 6000000 INFO @ Tue, 30 Jun 2020 03:30:09: 2000000 INFO @ Tue, 30 Jun 2020 03:30:10: 7000000 INFO @ Tue, 30 Jun 2020 03:30:16: 3000000 INFO @ Tue, 30 Jun 2020 03:30:17: 8000000 INFO @ Tue, 30 Jun 2020 03:30:22: 4000000 INFO @ Tue, 30 Jun 2020 03:30:23: 9000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 03:30:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.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, 30 Jun 2020 03:30:25: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:30:25: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:30:29: 5000000 INFO @ Tue, 30 Jun 2020 03:30:30: 10000000 INFO @ Tue, 30 Jun 2020 03:30:32: 1000000 INFO @ Tue, 30 Jun 2020 03:30:36: 6000000 INFO @ Tue, 30 Jun 2020 03:30:37: 11000000 INFO @ Tue, 30 Jun 2020 03:30:39: 2000000 INFO @ Tue, 30 Jun 2020 03:30:43: 7000000 INFO @ Tue, 30 Jun 2020 03:30:44: 12000000 INFO @ Tue, 30 Jun 2020 03:30:46: 3000000 INFO @ Tue, 30 Jun 2020 03:30:50: 8000000 INFO @ Tue, 30 Jun 2020 03:30:51: 13000000 INFO @ Tue, 30 Jun 2020 03:30:53: 4000000 INFO @ Tue, 30 Jun 2020 03:30:57: 9000000 INFO @ Tue, 30 Jun 2020 03:30:58: 14000000 INFO @ Tue, 30 Jun 2020 03:31:00: 5000000 INFO @ Tue, 30 Jun 2020 03:31:04: 10000000 INFO @ Tue, 30 Jun 2020 03:31:05: 15000000 INFO @ Tue, 30 Jun 2020 03:31:06: 6000000 INFO @ Tue, 30 Jun 2020 03:31:10: 11000000 INFO @ Tue, 30 Jun 2020 03:31:11: 16000000 INFO @ Tue, 30 Jun 2020 03:31:13: 7000000 INFO @ Tue, 30 Jun 2020 03:31:17: 12000000 INFO @ Tue, 30 Jun 2020 03:31:18: 17000000 INFO @ Tue, 30 Jun 2020 03:31:20: 8000000 INFO @ Tue, 30 Jun 2020 03:31:24: 13000000 INFO @ Tue, 30 Jun 2020 03:31:25: 18000000 INFO @ Tue, 30 Jun 2020 03:31:27: 9000000 INFO @ Tue, 30 Jun 2020 03:31:31: 14000000 INFO @ Tue, 30 Jun 2020 03:31:32: 19000000 INFO @ Tue, 30 Jun 2020 03:31:33: 10000000 INFO @ Tue, 30 Jun 2020 03:31:38: 15000000 INFO @ Tue, 30 Jun 2020 03:31:39: 20000000 INFO @ Tue, 30 Jun 2020 03:31:40: 11000000 INFO @ Tue, 30 Jun 2020 03:31:45: 16000000 INFO @ Tue, 30 Jun 2020 03:31:45: 21000000 INFO @ Tue, 30 Jun 2020 03:31:47: 12000000 INFO @ Tue, 30 Jun 2020 03:31:52: 17000000 INFO @ Tue, 30 Jun 2020 03:31:52: 22000000 INFO @ Tue, 30 Jun 2020 03:31:54: 13000000 INFO @ Tue, 30 Jun 2020 03:31:58: 18000000 INFO @ Tue, 30 Jun 2020 03:31:59: 23000000 INFO @ Tue, 30 Jun 2020 03:32:00: 14000000 INFO @ Tue, 30 Jun 2020 03:32:02: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:32:02: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:32:02: #1 total tags in treatment: 23399711 INFO @ Tue, 30 Jun 2020 03:32:02: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:32:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:32:03: #1 tags after filtering in treatment: 23399710 INFO @ Tue, 30 Jun 2020 03:32:03: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:32:03: #1 finished! INFO @ Tue, 30 Jun 2020 03:32:03: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:32:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:32:04: #2 number of paired peaks: 312 WARNING @ Tue, 30 Jun 2020 03:32:04: Fewer paired peaks (312) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 312 pairs to build model! INFO @ Tue, 30 Jun 2020 03:32:04: start model_add_line... INFO @ Tue, 30 Jun 2020 03:32:04: start X-correlation... INFO @ Tue, 30 Jun 2020 03:32:04: end of X-cor INFO @ Tue, 30 Jun 2020 03:32:04: #2 finished! INFO @ Tue, 30 Jun 2020 03:32:04: #2 predicted fragment length is 155 bps INFO @ Tue, 30 Jun 2020 03:32:04: #2 alternative fragment length(s) may be 4,155,176 bps INFO @ Tue, 30 Jun 2020 03:32:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.05_model.r INFO @ Tue, 30 Jun 2020 03:32:04: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:32:04: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:32:05: 19000000 INFO @ Tue, 30 Jun 2020 03:32:07: 15000000 INFO @ Tue, 30 Jun 2020 03:32:12: 20000000 INFO @ Tue, 30 Jun 2020 03:32:14: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:32:19: 21000000 INFO @ Tue, 30 Jun 2020 03:32:21: 17000000 INFO @ Tue, 30 Jun 2020 03:32:27: 22000000 INFO @ Tue, 30 Jun 2020 03:32:28: 18000000 INFO @ Tue, 30 Jun 2020 03:32:34: 23000000 INFO @ Tue, 30 Jun 2020 03:32:36: 19000000 INFO @ Tue, 30 Jun 2020 03:32:37: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:32:37: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:32:37: #1 total tags in treatment: 23399711 INFO @ Tue, 30 Jun 2020 03:32:37: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:32:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:32:38: #1 tags after filtering in treatment: 23399710 INFO @ Tue, 30 Jun 2020 03:32:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:32:38: #1 finished! INFO @ Tue, 30 Jun 2020 03:32:38: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:32:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:32:39: #2 number of paired peaks: 312 WARNING @ Tue, 30 Jun 2020 03:32:39: Fewer paired peaks (312) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 312 pairs to build model! INFO @ Tue, 30 Jun 2020 03:32:39: start model_add_line... INFO @ Tue, 30 Jun 2020 03:32:39: start X-correlation... INFO @ Tue, 30 Jun 2020 03:32:39: end of X-cor INFO @ Tue, 30 Jun 2020 03:32:39: #2 finished! INFO @ Tue, 30 Jun 2020 03:32:39: #2 predicted fragment length is 155 bps INFO @ Tue, 30 Jun 2020 03:32:39: #2 alternative fragment length(s) may be 4,155,176 bps INFO @ Tue, 30 Jun 2020 03:32:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.10_model.r INFO @ Tue, 30 Jun 2020 03:32:39: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:32:39: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:32:42: 20000000 INFO @ Tue, 30 Jun 2020 03:32:49: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:32:49: 21000000 INFO @ Tue, 30 Jun 2020 03:32:56: 22000000 INFO @ Tue, 30 Jun 2020 03:33:02: 23000000 INFO @ Tue, 30 Jun 2020 03:33:05: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:33:05: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:33:05: #1 total tags in treatment: 23399711 INFO @ Tue, 30 Jun 2020 03:33:05: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:33:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:33:06: #1 tags after filtering in treatment: 23399710 INFO @ Tue, 30 Jun 2020 03:33:06: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:33:06: #1 finished! INFO @ Tue, 30 Jun 2020 03:33:06: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:33:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:33:07: #2 number of paired peaks: 312 WARNING @ Tue, 30 Jun 2020 03:33:07: Fewer paired peaks (312) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 312 pairs to build model! INFO @ Tue, 30 Jun 2020 03:33:07: start model_add_line... INFO @ Tue, 30 Jun 2020 03:33:07: start X-correlation... INFO @ Tue, 30 Jun 2020 03:33:07: end of X-cor INFO @ Tue, 30 Jun 2020 03:33:07: #2 finished! INFO @ Tue, 30 Jun 2020 03:33:07: #2 predicted fragment length is 155 bps INFO @ Tue, 30 Jun 2020 03:33:07: #2 alternative fragment length(s) may be 4,155,176 bps INFO @ Tue, 30 Jun 2020 03:33:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.20_model.r INFO @ Tue, 30 Jun 2020 03:33:07: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:33:07: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:33:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.05_peaks.xls INFO @ Tue, 30 Jun 2020 03:33:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:33:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.05_summits.bed INFO @ Tue, 30 Jun 2020 03:33:09: Done! pass1 - making usageList (505 chroms): 1 millis pass2 - checking and writing primary data (5872 records, 4 fields): 17 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 03:33:22: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:33:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.10_peaks.xls INFO @ Tue, 30 Jun 2020 03:33:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:33:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.10_summits.bed INFO @ Tue, 30 Jun 2020 03:33:42: Done! pass1 - making usageList (337 chroms): 1 millis pass2 - checking and writing primary data (2934 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:33:50: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:34:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.20_peaks.xls INFO @ Tue, 30 Jun 2020 03:34:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:34:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX815529/SRX815529.20_summits.bed INFO @ Tue, 30 Jun 2020 03:34:10: Done! pass1 - making usageList (243 chroms): 1 millis pass2 - checking and writing primary data (1148 records, 4 fields): 9 millis CompletedMACS2peakCalling