Job ID = 14171781 SRX = SRX9986143 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: 00:07:22 22180523 reads; of these: 22180523 (100.00%) were unpaired; of these: 1626899 (7.33%) aligned 0 times 11601432 (52.30%) aligned exactly 1 time 8952192 (40.36%) aligned >1 times 92.67% overall alignment rate Time searching: 00:07:22 Overall time: 00:07:22 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 12 files... [bam_rmdupse_core] 6231006 / 20553624 = 0.3032 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 13:01:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.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 13:01:06: #1 read tag files... INFO @ Sat, 11 Dec 2021 13:01:06: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 13:01:12: 1000000 INFO @ Sat, 11 Dec 2021 13:01:18: 2000000 INFO @ Sat, 11 Dec 2021 13:01:24: 3000000 INFO @ Sat, 11 Dec 2021 13:01:30: 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 @ Sat, 11 Dec 2021 13:01:35: 5000000 INFO @ Sat, 11 Dec 2021 13:01:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.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 13:01:36: #1 read tag files... INFO @ Sat, 11 Dec 2021 13:01:36: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 13:01:41: 6000000 INFO @ Sat, 11 Dec 2021 13:01:43: 1000000 INFO @ Sat, 11 Dec 2021 13:01:48: 7000000 INFO @ Sat, 11 Dec 2021 13:01:49: 2000000 INFO @ Sat, 11 Dec 2021 13:01:54: 8000000 INFO @ Sat, 11 Dec 2021 13:01:55: 3000000 INFO @ Sat, 11 Dec 2021 13:02:00: 9000000 INFO @ Sat, 11 Dec 2021 13:02:02: 4000000 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 13:02:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.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 13:02:06: #1 read tag files... INFO @ Sat, 11 Dec 2021 13:02:06: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 13:02:07: 10000000 INFO @ Sat, 11 Dec 2021 13:02:08: 5000000 INFO @ Sat, 11 Dec 2021 13:02:13: 1000000 INFO @ Sat, 11 Dec 2021 13:02:13: 11000000 INFO @ Sat, 11 Dec 2021 13:02:14: 6000000 INFO @ Sat, 11 Dec 2021 13:02:20: 2000000 INFO @ Sat, 11 Dec 2021 13:02:21: 7000000 INFO @ Sat, 11 Dec 2021 13:02:21: 12000000 INFO @ Sat, 11 Dec 2021 13:02:27: 3000000 INFO @ Sat, 11 Dec 2021 13:02:27: 8000000 INFO @ Sat, 11 Dec 2021 13:02:28: 13000000 INFO @ Sat, 11 Dec 2021 13:02:33: 9000000 INFO @ Sat, 11 Dec 2021 13:02:33: 4000000 INFO @ Sat, 11 Dec 2021 13:02:35: 14000000 INFO @ Sat, 11 Dec 2021 13:02:38: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 13:02:38: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 13:02:38: #1 total tags in treatment: 14322618 INFO @ Sat, 11 Dec 2021 13:02:38: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 13:02:38: #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 13:02:38: #1 tags after filtering in treatment: 14322542 INFO @ Sat, 11 Dec 2021 13:02:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 13:02:38: #1 finished! INFO @ Sat, 11 Dec 2021 13:02:38: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 13:02:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 13:02:39: 10000000 INFO @ Sat, 11 Dec 2021 13:02:40: #2 number of paired peaks: 1291 INFO @ Sat, 11 Dec 2021 13:02:40: start model_add_line... INFO @ Sat, 11 Dec 2021 13:02:40: start X-correlation... INFO @ Sat, 11 Dec 2021 13:02:40: end of X-cor INFO @ Sat, 11 Dec 2021 13:02:40: #2 finished! INFO @ Sat, 11 Dec 2021 13:02:40: #2 predicted fragment length is 48 bps INFO @ Sat, 11 Dec 2021 13:02:40: #2 alternative fragment length(s) may be 2,48 bps INFO @ Sat, 11 Dec 2021 13:02:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.05_model.r WARNING @ Sat, 11 Dec 2021 13:02:40: #2 Since the d (48) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 13:02:40: #2 You may need to consider one of the other alternative d(s): 2,48 WARNING @ Sat, 11 Dec 2021 13:02:40: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 13:02:40: #3 Call peaks... INFO @ Sat, 11 Dec 2021 13:02:40: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 13:02:40: 5000000 INFO @ Sat, 11 Dec 2021 13:02:45: 11000000 INFO @ Sat, 11 Dec 2021 13:02:46: 6000000 INFO @ Sat, 11 Dec 2021 13:02:52: 7000000 INFO @ Sat, 11 Dec 2021 13:02:52: 12000000 INFO @ Sat, 11 Dec 2021 13:02:58: 8000000 INFO @ Sat, 11 Dec 2021 13:02:58: 13000000 INFO @ Sat, 11 Dec 2021 13:03:04: 9000000 INFO @ Sat, 11 Dec 2021 13:03:05: 14000000 INFO @ Sat, 11 Dec 2021 13:03:06: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 13:03:07: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 13:03:07: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 13:03:07: #1 total tags in treatment: 14322618 INFO @ Sat, 11 Dec 2021 13:03:07: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 13:03:07: #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 13:03:08: #1 tags after filtering in treatment: 14322542 INFO @ Sat, 11 Dec 2021 13:03:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 13:03:08: #1 finished! INFO @ Sat, 11 Dec 2021 13:03:08: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 13:03:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 13:03:09: #2 number of paired peaks: 1291 INFO @ Sat, 11 Dec 2021 13:03:09: start model_add_line... INFO @ Sat, 11 Dec 2021 13:03:09: start X-correlation... INFO @ Sat, 11 Dec 2021 13:03:09: end of X-cor INFO @ Sat, 11 Dec 2021 13:03:09: #2 finished! INFO @ Sat, 11 Dec 2021 13:03:09: #2 predicted fragment length is 48 bps INFO @ Sat, 11 Dec 2021 13:03:09: #2 alternative fragment length(s) may be 2,48 bps INFO @ Sat, 11 Dec 2021 13:03:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.10_model.r WARNING @ Sat, 11 Dec 2021 13:03:09: #2 Since the d (48) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 13:03:09: #2 You may need to consider one of the other alternative d(s): 2,48 WARNING @ Sat, 11 Dec 2021 13:03:09: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 13:03:09: #3 Call peaks... INFO @ Sat, 11 Dec 2021 13:03:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 13:03:10: 10000000 INFO @ Sat, 11 Dec 2021 13:03:16: 11000000 INFO @ Sat, 11 Dec 2021 13:03:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.05_peaks.xls INFO @ Sat, 11 Dec 2021 13:03:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 13:03:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.05_summits.bed INFO @ Sat, 11 Dec 2021 13:03:20: Done! pass1 - making usageList (618 chroms): 2 millis pass2 - checking and writing primary data (2789 records, 4 fields): 40 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 13:03:23: 12000000 INFO @ Sat, 11 Dec 2021 13:03:29: 13000000 INFO @ Sat, 11 Dec 2021 13:03:35: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 13:03:35: 14000000 INFO @ Sat, 11 Dec 2021 13:03:37: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 13:03:37: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 13:03:37: #1 total tags in treatment: 14322618 INFO @ Sat, 11 Dec 2021 13:03:37: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 13:03:37: #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 13:03:38: #1 tags after filtering in treatment: 14322542 INFO @ Sat, 11 Dec 2021 13:03:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 13:03:38: #1 finished! INFO @ Sat, 11 Dec 2021 13:03:38: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 13:03:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 13:03:39: #2 number of paired peaks: 1291 INFO @ Sat, 11 Dec 2021 13:03:39: start model_add_line... INFO @ Sat, 11 Dec 2021 13:03:39: start X-correlation... INFO @ Sat, 11 Dec 2021 13:03:39: end of X-cor INFO @ Sat, 11 Dec 2021 13:03:39: #2 finished! INFO @ Sat, 11 Dec 2021 13:03:39: #2 predicted fragment length is 48 bps INFO @ Sat, 11 Dec 2021 13:03:39: #2 alternative fragment length(s) may be 2,48 bps INFO @ Sat, 11 Dec 2021 13:03:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.20_model.r WARNING @ Sat, 11 Dec 2021 13:03:39: #2 Since the d (48) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 13:03:39: #2 You may need to consider one of the other alternative d(s): 2,48 WARNING @ Sat, 11 Dec 2021 13:03:39: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 13:03:39: #3 Call peaks... INFO @ Sat, 11 Dec 2021 13:03:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 13:03:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.10_peaks.xls INFO @ Sat, 11 Dec 2021 13:03:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 13:03:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.10_summits.bed INFO @ Sat, 11 Dec 2021 13:03:49: Done! pass1 - making usageList (530 chroms): 2 millis pass2 - checking and writing primary data (2087 records, 4 fields): 36 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 13:04:05: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 13:04:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.20_peaks.xls INFO @ Sat, 11 Dec 2021 13:04:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 13:04:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986143/SRX9986143.20_summits.bed INFO @ Sat, 11 Dec 2021 13:04:19: Done! pass1 - making usageList (352 chroms): 1 millis pass2 - checking and writing primary data (827 records, 4 fields): 23 millis CompletedMACS2peakCalling BigWig に変換しました。