Job ID = 12265049 SRX = SRX7246262 Genome = ce11 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: 00:04:06 20949365 reads; of these: 20949365 (100.00%) were unpaired; of these: 1196273 (5.71%) aligned 0 times 17308866 (82.62%) aligned exactly 1 time 2444226 (11.67%) aligned >1 times 94.29% overall alignment rate Time searching: 00:04:06 Overall time: 00:04:06 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 12351199 / 19753092 = 0.6253 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 06:13:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.bam'] # control file = None # effective genome size = 9.00e+07 # 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 06:13:55: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:13:55: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:14:02: 1000000 INFO @ Sat, 03 Apr 2021 06:14:08: 2000000 INFO @ Sat, 03 Apr 2021 06:14:14: 3000000 INFO @ Sat, 03 Apr 2021 06:14:21: 4000000 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 06:14:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.bam'] # control file = None # effective genome size = 9.00e+07 # 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 06:14:25: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:14:25: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:14:27: 5000000 INFO @ Sat, 03 Apr 2021 06:14:32: 1000000 INFO @ Sat, 03 Apr 2021 06:14:34: 6000000 INFO @ Sat, 03 Apr 2021 06:14:39: 2000000 INFO @ Sat, 03 Apr 2021 06:14:40: 7000000 INFO @ Sat, 03 Apr 2021 06:14:43: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:14:43: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:14:43: #1 total tags in treatment: 7401893 INFO @ Sat, 03 Apr 2021 06:14:43: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:14:43: #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 06:14:43: #1 tags after filtering in treatment: 7401893 INFO @ Sat, 03 Apr 2021 06:14:43: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:14:43: #1 finished! INFO @ Sat, 03 Apr 2021 06:14:43: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:14:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:14:44: #2 number of paired peaks: 1158 INFO @ Sat, 03 Apr 2021 06:14:44: start model_add_line... INFO @ Sat, 03 Apr 2021 06:14:44: start X-correlation... INFO @ Sat, 03 Apr 2021 06:14:44: end of X-cor INFO @ Sat, 03 Apr 2021 06:14:44: #2 finished! INFO @ Sat, 03 Apr 2021 06:14:44: #2 predicted fragment length is 97 bps INFO @ Sat, 03 Apr 2021 06:14:44: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 03 Apr 2021 06:14:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.05_model.r WARNING @ Sat, 03 Apr 2021 06:14:44: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:14:44: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 03 Apr 2021 06:14:44: #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 06:14:44: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:14:44: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:14:45: 3000000 INFO @ Sat, 03 Apr 2021 06:14:51: 4000000 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 06:14:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.bam'] # control file = None # effective genome size = 9.00e+07 # 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 06:14:55: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:14:55: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:14:58: 5000000 INFO @ Sat, 03 Apr 2021 06:14:59: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:15:02: 1000000 INFO @ Sat, 03 Apr 2021 06:15:04: 6000000 INFO @ Sat, 03 Apr 2021 06:15:07: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:15:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:15:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.05_summits.bed INFO @ Sat, 03 Apr 2021 06:15:07: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6732 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:15:08: 2000000 INFO @ Sat, 03 Apr 2021 06:15:11: 7000000 INFO @ Sat, 03 Apr 2021 06:15:13: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:15:13: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:15:13: #1 total tags in treatment: 7401893 INFO @ Sat, 03 Apr 2021 06:15:13: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:15:13: #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 06:15:13: #1 tags after filtering in treatment: 7401893 INFO @ Sat, 03 Apr 2021 06:15:13: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:15:13: #1 finished! INFO @ Sat, 03 Apr 2021 06:15:13: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:15:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:15:14: #2 number of paired peaks: 1158 INFO @ Sat, 03 Apr 2021 06:15:14: start model_add_line... INFO @ Sat, 03 Apr 2021 06:15:14: start X-correlation... INFO @ Sat, 03 Apr 2021 06:15:14: end of X-cor INFO @ Sat, 03 Apr 2021 06:15:14: #2 finished! INFO @ Sat, 03 Apr 2021 06:15:14: #2 predicted fragment length is 97 bps INFO @ Sat, 03 Apr 2021 06:15:14: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 03 Apr 2021 06:15:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.10_model.r WARNING @ Sat, 03 Apr 2021 06:15:14: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:15:14: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 03 Apr 2021 06:15:14: #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 06:15:14: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:15:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:15:14: 3000000 INFO @ Sat, 03 Apr 2021 06:15:20: 4000000 INFO @ Sat, 03 Apr 2021 06:15:27: 5000000 INFO @ Sat, 03 Apr 2021 06:15:29: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:15:33: 6000000 INFO @ Sat, 03 Apr 2021 06:15:36: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:15:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:15:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.10_summits.bed INFO @ Sat, 03 Apr 2021 06:15:36: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (4407 records, 4 fields): 6 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:15:39: 7000000 INFO @ Sat, 03 Apr 2021 06:15:41: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:15:41: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:15:41: #1 total tags in treatment: 7401893 INFO @ Sat, 03 Apr 2021 06:15:41: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:15:41: #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 06:15:41: #1 tags after filtering in treatment: 7401893 INFO @ Sat, 03 Apr 2021 06:15:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:15:41: #1 finished! INFO @ Sat, 03 Apr 2021 06:15:41: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:15:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:15:42: #2 number of paired peaks: 1158 INFO @ Sat, 03 Apr 2021 06:15:42: start model_add_line... INFO @ Sat, 03 Apr 2021 06:15:42: start X-correlation... INFO @ Sat, 03 Apr 2021 06:15:42: end of X-cor INFO @ Sat, 03 Apr 2021 06:15:42: #2 finished! INFO @ Sat, 03 Apr 2021 06:15:42: #2 predicted fragment length is 97 bps INFO @ Sat, 03 Apr 2021 06:15:42: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 03 Apr 2021 06:15:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.20_model.r WARNING @ Sat, 03 Apr 2021 06:15:42: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:15:42: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 03 Apr 2021 06:15:42: #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 06:15:42: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:15:42: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:15:57: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:16:05: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:16:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:16:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7246262/SRX7246262.20_summits.bed INFO @ Sat, 03 Apr 2021 06:16:05: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (2220 records, 4 fields): 4 millis CompletedMACS2peakCalling