Job ID = 12265423 SRX = SRX5010741 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: 00:06:58 26542697 reads; of these: 26542697 (100.00%) were unpaired; of these: 1025307 (3.86%) aligned 0 times 20927142 (78.84%) aligned exactly 1 time 4590248 (17.29%) aligned >1 times 96.14% overall alignment rate Time searching: 00:06:58 Overall time: 00:06:58 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] 14619091 / 25517390 = 0.5729 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:08:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.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, 03 Apr 2021 07:08:57: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:08:57: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:09:03: 1000000 INFO @ Sat, 03 Apr 2021 07:09:09: 2000000 INFO @ Sat, 03 Apr 2021 07:09:14: 3000000 INFO @ Sat, 03 Apr 2021 07:09:20: 4000000 INFO @ Sat, 03 Apr 2021 07:09:25: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:09:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.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, 03 Apr 2021 07:09:27: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:09:27: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:09:31: 6000000 INFO @ Sat, 03 Apr 2021 07:09:33: 1000000 INFO @ Sat, 03 Apr 2021 07:09:37: 7000000 INFO @ Sat, 03 Apr 2021 07:09:38: 2000000 INFO @ Sat, 03 Apr 2021 07:09:42: 8000000 INFO @ Sat, 03 Apr 2021 07:09:43: 3000000 INFO @ Sat, 03 Apr 2021 07:09:48: 4000000 INFO @ Sat, 03 Apr 2021 07:09:49: 9000000 INFO @ Sat, 03 Apr 2021 07:09:53: 5000000 INFO @ Sat, 03 Apr 2021 07:09:55: 10000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:09:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.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, 03 Apr 2021 07:09:57: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:09:57: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:09:58: 6000000 INFO @ Sat, 03 Apr 2021 07:10:00: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:10:00: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:10:00: #1 total tags in treatment: 10898299 INFO @ Sat, 03 Apr 2021 07:10:00: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:10:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:10:01: #1 tags after filtering in treatment: 10898178 INFO @ Sat, 03 Apr 2021 07:10:01: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:10:01: #1 finished! INFO @ Sat, 03 Apr 2021 07:10:01: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:10:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:10:02: #2 number of paired peaks: 2560 INFO @ Sat, 03 Apr 2021 07:10:02: start model_add_line... INFO @ Sat, 03 Apr 2021 07:10:02: start X-correlation... INFO @ Sat, 03 Apr 2021 07:10:02: end of X-cor INFO @ Sat, 03 Apr 2021 07:10:02: #2 finished! INFO @ Sat, 03 Apr 2021 07:10:02: #2 predicted fragment length is 75 bps INFO @ Sat, 03 Apr 2021 07:10:02: #2 alternative fragment length(s) may be 75 bps INFO @ Sat, 03 Apr 2021 07:10:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.05_model.r WARNING @ Sat, 03 Apr 2021 07:10:02: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:10:02: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Sat, 03 Apr 2021 07:10:02: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 07:10:02: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:10:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:10:03: 1000000 INFO @ Sat, 03 Apr 2021 07:10:03: 7000000 INFO @ Sat, 03 Apr 2021 07:10:08: 2000000 INFO @ Sat, 03 Apr 2021 07:10:08: 8000000 INFO @ Sat, 03 Apr 2021 07:10:13: 3000000 INFO @ Sat, 03 Apr 2021 07:10:14: 9000000 INFO @ Sat, 03 Apr 2021 07:10:18: 4000000 INFO @ Sat, 03 Apr 2021 07:10:19: 10000000 INFO @ Sat, 03 Apr 2021 07:10:23: 5000000 INFO @ Sat, 03 Apr 2021 07:10:24: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:10:24: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:10:24: #1 total tags in treatment: 10898299 INFO @ Sat, 03 Apr 2021 07:10:24: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:10:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:10:25: #1 tags after filtering in treatment: 10898178 INFO @ Sat, 03 Apr 2021 07:10:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:10:25: #1 finished! INFO @ Sat, 03 Apr 2021 07:10:25: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:10:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:10:26: #2 number of paired peaks: 2560 INFO @ Sat, 03 Apr 2021 07:10:26: start model_add_line... INFO @ Sat, 03 Apr 2021 07:10:26: start X-correlation... INFO @ Sat, 03 Apr 2021 07:10:26: end of X-cor INFO @ Sat, 03 Apr 2021 07:10:26: #2 finished! INFO @ Sat, 03 Apr 2021 07:10:26: #2 predicted fragment length is 75 bps INFO @ Sat, 03 Apr 2021 07:10:26: #2 alternative fragment length(s) may be 75 bps INFO @ Sat, 03 Apr 2021 07:10:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.10_model.r WARNING @ Sat, 03 Apr 2021 07:10:26: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:10:26: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Sat, 03 Apr 2021 07:10:26: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 07:10:26: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:10:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:10:28: 6000000 INFO @ Sat, 03 Apr 2021 07:10:29: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:10:33: 7000000 INFO @ Sat, 03 Apr 2021 07:10:37: 8000000 INFO @ Sat, 03 Apr 2021 07:10:43: 9000000 INFO @ Sat, 03 Apr 2021 07:10:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.05_peaks.xls INFO @ Sat, 03 Apr 2021 07:10:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:10:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.05_summits.bed INFO @ Sat, 03 Apr 2021 07:10:44: Done! pass1 - making usageList (328 chroms): 3 millis pass2 - checking and writing primary data (13078 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:10:48: 10000000 INFO @ Sat, 03 Apr 2021 07:10:51: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:10:52: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:10:52: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:10:52: #1 total tags in treatment: 10898299 INFO @ Sat, 03 Apr 2021 07:10:52: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:10:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:10:53: #1 tags after filtering in treatment: 10898178 INFO @ Sat, 03 Apr 2021 07:10:53: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:10:53: #1 finished! INFO @ Sat, 03 Apr 2021 07:10:53: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:10:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:10:54: #2 number of paired peaks: 2560 INFO @ Sat, 03 Apr 2021 07:10:54: start model_add_line... INFO @ Sat, 03 Apr 2021 07:10:54: start X-correlation... INFO @ Sat, 03 Apr 2021 07:10:54: end of X-cor INFO @ Sat, 03 Apr 2021 07:10:54: #2 finished! INFO @ Sat, 03 Apr 2021 07:10:54: #2 predicted fragment length is 75 bps INFO @ Sat, 03 Apr 2021 07:10:54: #2 alternative fragment length(s) may be 75 bps INFO @ Sat, 03 Apr 2021 07:10:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.20_model.r WARNING @ Sat, 03 Apr 2021 07:10:54: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:10:54: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Sat, 03 Apr 2021 07:10:54: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 07:10:54: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:10:54: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:11:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.10_peaks.xls INFO @ Sat, 03 Apr 2021 07:11:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:11:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.10_summits.bed INFO @ Sat, 03 Apr 2021 07:11:06: Done! pass1 - making usageList (183 chroms): 2 millis pass2 - checking and writing primary data (7563 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:11:21: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 07:11:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:11:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:11:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010741/SRX5010741.20_summits.bed INFO @ Sat, 03 Apr 2021 07:11:35: Done! pass1 - making usageList (133 chroms): 1 millis pass2 - checking and writing primary data (2888 records, 4 fields): 9 millis CompletedMACS2peakCalling