Job ID = 16439522 SRX = SRX15312098 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: 00:14:40 31492210 reads; of these: 31492210 (100.00%) were unpaired; of these: 1284492 (4.08%) aligned 0 times 25004594 (79.40%) aligned exactly 1 time 5203124 (16.52%) aligned >1 times 95.92% overall alignment rate Time searching: 00:14:41 Overall time: 00:14:41 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] 3765481 / 30207718 = 0.1247 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 15:55:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.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 15:55:37: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:55:37: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:55:50: 1000000 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 15:56:03: 2000000 INFO @ Tue, 02 Aug 2022 15:56:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.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 15:56:05: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:56:05: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:56:16: 3000000 INFO @ Tue, 02 Aug 2022 15:56:16: 1000000 INFO @ Tue, 02 Aug 2022 15:56:27: 2000000 INFO @ Tue, 02 Aug 2022 15:56:30: 4000000 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 15:56:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.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 15:56:35: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:56:35: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:56:38: 3000000 INFO @ Tue, 02 Aug 2022 15:56:43: 5000000 INFO @ Tue, 02 Aug 2022 15:56:47: 1000000 INFO @ Tue, 02 Aug 2022 15:56:50: 4000000 INFO @ Tue, 02 Aug 2022 15:56:56: 6000000 INFO @ Tue, 02 Aug 2022 15:56:59: 2000000 INFO @ Tue, 02 Aug 2022 15:57:03: 5000000 INFO @ Tue, 02 Aug 2022 15:57:11: 7000000 INFO @ Tue, 02 Aug 2022 15:57:13: 3000000 INFO @ Tue, 02 Aug 2022 15:57:16: 6000000 INFO @ Tue, 02 Aug 2022 15:57:25: 8000000 INFO @ Tue, 02 Aug 2022 15:57:27: 4000000 INFO @ Tue, 02 Aug 2022 15:57:30: 7000000 INFO @ Tue, 02 Aug 2022 15:57:40: 9000000 INFO @ Tue, 02 Aug 2022 15:57:41: 5000000 INFO @ Tue, 02 Aug 2022 15:57:44: 8000000 INFO @ Tue, 02 Aug 2022 15:57:55: 6000000 INFO @ Tue, 02 Aug 2022 15:57:56: 10000000 INFO @ Tue, 02 Aug 2022 15:57:58: 9000000 INFO @ Tue, 02 Aug 2022 15:58:09: 7000000 INFO @ Tue, 02 Aug 2022 15:58:10: 11000000 INFO @ Tue, 02 Aug 2022 15:58:12: 10000000 INFO @ Tue, 02 Aug 2022 15:58:25: 12000000 INFO @ Tue, 02 Aug 2022 15:58:26: 8000000 INFO @ Tue, 02 Aug 2022 15:58:27: 11000000 INFO @ Tue, 02 Aug 2022 15:58:40: 9000000 INFO @ Tue, 02 Aug 2022 15:58:40: 13000000 INFO @ Tue, 02 Aug 2022 15:58:42: 12000000 INFO @ Tue, 02 Aug 2022 15:58:56: 13000000 INFO @ Tue, 02 Aug 2022 15:58:56: 14000000 INFO @ Tue, 02 Aug 2022 15:58:56: 10000000 INFO @ Tue, 02 Aug 2022 15:59:10: 14000000 INFO @ Tue, 02 Aug 2022 15:59:11: 11000000 INFO @ Tue, 02 Aug 2022 15:59:11: 15000000 INFO @ Tue, 02 Aug 2022 15:59:24: 15000000 INFO @ Tue, 02 Aug 2022 15:59:25: 16000000 INFO @ Tue, 02 Aug 2022 15:59:26: 12000000 INFO @ Tue, 02 Aug 2022 15:59:38: 16000000 INFO @ Tue, 02 Aug 2022 15:59:40: 17000000 INFO @ Tue, 02 Aug 2022 15:59:41: 13000000 INFO @ Tue, 02 Aug 2022 15:59:53: 17000000 INFO @ Tue, 02 Aug 2022 15:59:55: 18000000 INFO @ Tue, 02 Aug 2022 15:59:57: 14000000 INFO @ Tue, 02 Aug 2022 16:00:08: 18000000 INFO @ Tue, 02 Aug 2022 16:00:11: 19000000 INFO @ Tue, 02 Aug 2022 16:00:11: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:00:24: 19000000 INFO @ Tue, 02 Aug 2022 16:00:25: 20000000 INFO @ Tue, 02 Aug 2022 16:00:26: 16000000 INFO @ Tue, 02 Aug 2022 16:00:39: 21000000 INFO @ Tue, 02 Aug 2022 16:00:39: 20000000 INFO @ Tue, 02 Aug 2022 16:00:40: 17000000 INFO @ Tue, 02 Aug 2022 16:00:53: 22000000 INFO @ Tue, 02 Aug 2022 16:00:54: 18000000 INFO @ Tue, 02 Aug 2022 16:00:54: 21000000 INFO @ Tue, 02 Aug 2022 16:01:07: 23000000 INFO @ Tue, 02 Aug 2022 16:01:07: 19000000 INFO @ Tue, 02 Aug 2022 16:01:09: 22000000 INFO @ Tue, 02 Aug 2022 16:01:22: 24000000 INFO @ Tue, 02 Aug 2022 16:01:22: 20000000 INFO @ Tue, 02 Aug 2022 16:01:25: 23000000 INFO @ Tue, 02 Aug 2022 16:01:36: 21000000 INFO @ Tue, 02 Aug 2022 16:01:36: 25000000 INFO @ Tue, 02 Aug 2022 16:01:40: 24000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:01:51: 22000000 INFO @ Tue, 02 Aug 2022 16:01:51: 26000000 INFO @ Tue, 02 Aug 2022 16:01:54: 25000000 INFO @ Tue, 02 Aug 2022 16:01:58: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 16:01:58: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 16:01:58: #1 total tags in treatment: 26442237 INFO @ Tue, 02 Aug 2022 16:01:58: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:01:58: #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 16:01:59: #1 tags after filtering in treatment: 26442236 INFO @ Tue, 02 Aug 2022 16:01:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:01:59: #1 finished! INFO @ Tue, 02 Aug 2022 16:01:59: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:01:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:02:01: #2 number of paired peaks: 145 WARNING @ Tue, 02 Aug 2022 16:02:01: Fewer paired peaks (145) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 145 pairs to build model! INFO @ Tue, 02 Aug 2022 16:02:01: start model_add_line... INFO @ Tue, 02 Aug 2022 16:02:01: start X-correlation... INFO @ Tue, 02 Aug 2022 16:02:02: end of X-cor INFO @ Tue, 02 Aug 2022 16:02:02: #2 finished! INFO @ Tue, 02 Aug 2022 16:02:02: #2 predicted fragment length is 162 bps INFO @ Tue, 02 Aug 2022 16:02:02: #2 alternative fragment length(s) may be 162,176 bps INFO @ Tue, 02 Aug 2022 16:02:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.05_model.r INFO @ Tue, 02 Aug 2022 16:02:02: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:02:02: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:02:05: 23000000 INFO @ Tue, 02 Aug 2022 16:02:10: 26000000 INFO @ Tue, 02 Aug 2022 16:02:16: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 16:02:16: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 16:02:16: #1 total tags in treatment: 26442237 INFO @ Tue, 02 Aug 2022 16:02:16: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:02:16: #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 16:02:18: #1 tags after filtering in treatment: 26442236 INFO @ Tue, 02 Aug 2022 16:02:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:02:18: #1 finished! INFO @ Tue, 02 Aug 2022 16:02:18: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:02:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:02:18: 24000000 INFO @ Tue, 02 Aug 2022 16:02:20: #2 number of paired peaks: 145 WARNING @ Tue, 02 Aug 2022 16:02:20: Fewer paired peaks (145) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 145 pairs to build model! INFO @ Tue, 02 Aug 2022 16:02:20: start model_add_line... INFO @ Tue, 02 Aug 2022 16:02:21: start X-correlation... INFO @ Tue, 02 Aug 2022 16:02:21: end of X-cor INFO @ Tue, 02 Aug 2022 16:02:21: #2 finished! INFO @ Tue, 02 Aug 2022 16:02:21: #2 predicted fragment length is 162 bps INFO @ Tue, 02 Aug 2022 16:02:21: #2 alternative fragment length(s) may be 162,176 bps INFO @ Tue, 02 Aug 2022 16:02:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.10_model.r INFO @ Tue, 02 Aug 2022 16:02:21: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:02:21: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:02:32: 25000000 INFO @ Tue, 02 Aug 2022 16:02:47: 26000000 INFO @ Tue, 02 Aug 2022 16:02:53: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 16:02:53: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 16:02:53: #1 total tags in treatment: 26442237 INFO @ Tue, 02 Aug 2022 16:02:53: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:02:53: #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 16:02:54: #1 tags after filtering in treatment: 26442236 INFO @ Tue, 02 Aug 2022 16:02:54: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:02:54: #1 finished! INFO @ Tue, 02 Aug 2022 16:02:54: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:02:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:02:56: #2 number of paired peaks: 145 WARNING @ Tue, 02 Aug 2022 16:02:56: Fewer paired peaks (145) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 145 pairs to build model! INFO @ Tue, 02 Aug 2022 16:02:56: start model_add_line... INFO @ Tue, 02 Aug 2022 16:02:56: start X-correlation... INFO @ Tue, 02 Aug 2022 16:02:56: end of X-cor INFO @ Tue, 02 Aug 2022 16:02:56: #2 finished! INFO @ Tue, 02 Aug 2022 16:02:56: #2 predicted fragment length is 162 bps INFO @ Tue, 02 Aug 2022 16:02:56: #2 alternative fragment length(s) may be 162,176 bps INFO @ Tue, 02 Aug 2022 16:02:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.20_model.r INFO @ Tue, 02 Aug 2022 16:02:56: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:02:56: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:03:20: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:03:36: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:03:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.05_peaks.xls INFO @ Tue, 02 Aug 2022 16:03:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:03:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.05_summits.bed INFO @ Tue, 02 Aug 2022 16:03:58: Done! pass1 - making usageList (482 chroms): 4 millis pass2 - checking and writing primary data (8028 records, 4 fields): 71 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:04:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.10_peaks.xls INFO @ Tue, 02 Aug 2022 16:04:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:04:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.10_summits.bed INFO @ Tue, 02 Aug 2022 16:04:13: Done! pass1 - making usageList (393 chroms): 14 millis pass2 - checking and writing primary data (5336 records, 4 fields): 50 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:04:15: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:04:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.20_peaks.xls INFO @ Tue, 02 Aug 2022 16:04:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:04:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15312098/SRX15312098.20_summits.bed INFO @ Tue, 02 Aug 2022 16:04:51: Done! pass1 - making usageList (233 chroms): 6 millis pass2 - checking and writing primary data (2796 records, 4 fields): 93 millis CompletedMACS2peakCalling