Job ID = 14160509 SRX = SRX8331153 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 10720309 spots for SRR11778466/SRR11778466.sra Written 10720309 spots for SRR11778466/SRR11778466.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160638 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:57 10720309 reads; of these: 10720309 (100.00%) were unpaired; of these: 2564968 (23.93%) aligned 0 times 5672870 (52.92%) aligned exactly 1 time 2482471 (23.16%) aligned >1 times 76.07% overall alignment rate Time searching: 00:03:57 Overall time: 00:03:57 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_rmdupse_core] 7679398 / 8155341 = 0.9416 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 @ Thu, 09 Dec 2021 03:00:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.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 @ Thu, 09 Dec 2021 03:00:10: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:00:10: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:00:13: #1 tag size is determined as 67 bps INFO @ Thu, 09 Dec 2021 03:00:13: #1 tag size = 67 INFO @ Thu, 09 Dec 2021 03:00:13: #1 total tags in treatment: 475943 INFO @ Thu, 09 Dec 2021 03:00:13: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:00:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:00:13: #1 tags after filtering in treatment: 475943 INFO @ Thu, 09 Dec 2021 03:00:13: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:00:13: #1 finished! INFO @ Thu, 09 Dec 2021 03:00:13: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:00:13: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:00:13: #2 number of paired peaks: 2493 INFO @ Thu, 09 Dec 2021 03:00:13: start model_add_line... INFO @ Thu, 09 Dec 2021 03:00:13: start X-correlation... INFO @ Thu, 09 Dec 2021 03:00:13: end of X-cor INFO @ Thu, 09 Dec 2021 03:00:13: #2 finished! INFO @ Thu, 09 Dec 2021 03:00:13: #2 predicted fragment length is 71 bps INFO @ Thu, 09 Dec 2021 03:00:13: #2 alternative fragment length(s) may be 71 bps INFO @ Thu, 09 Dec 2021 03:00:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.05_model.r WARNING @ Thu, 09 Dec 2021 03:00:13: #2 Since the d (71) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:00:13: #2 You may need to consider one of the other alternative d(s): 71 WARNING @ Thu, 09 Dec 2021 03:00:13: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:00:13: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:00:13: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:00:14: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:00:15: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.05_peaks.xls INFO @ Thu, 09 Dec 2021 03:00:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:00:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.05_summits.bed INFO @ Thu, 09 Dec 2021 03:00:15: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (1056 records, 4 fields): 2 millis CompletedMACS2peakCalling 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 @ Thu, 09 Dec 2021 03:00:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.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 @ Thu, 09 Dec 2021 03:00:41: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:00:41: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:00:43: #1 tag size is determined as 67 bps INFO @ Thu, 09 Dec 2021 03:00:43: #1 tag size = 67 INFO @ Thu, 09 Dec 2021 03:00:43: #1 total tags in treatment: 475943 INFO @ Thu, 09 Dec 2021 03:00:43: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:00:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:00:43: #1 tags after filtering in treatment: 475943 INFO @ Thu, 09 Dec 2021 03:00:43: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:00:43: #1 finished! INFO @ Thu, 09 Dec 2021 03:00:43: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:00:43: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:00:44: #2 number of paired peaks: 2493 INFO @ Thu, 09 Dec 2021 03:00:44: start model_add_line... INFO @ Thu, 09 Dec 2021 03:00:44: start X-correlation... INFO @ Thu, 09 Dec 2021 03:00:44: end of X-cor INFO @ Thu, 09 Dec 2021 03:00:44: #2 finished! INFO @ Thu, 09 Dec 2021 03:00:44: #2 predicted fragment length is 71 bps INFO @ Thu, 09 Dec 2021 03:00:44: #2 alternative fragment length(s) may be 71 bps INFO @ Thu, 09 Dec 2021 03:00:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.10_model.r WARNING @ Thu, 09 Dec 2021 03:00:44: #2 Since the d (71) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:00:44: #2 You may need to consider one of the other alternative d(s): 71 WARNING @ Thu, 09 Dec 2021 03:00:44: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:00:44: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:00:44: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:00:45: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:00:45: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.10_peaks.xls INFO @ Thu, 09 Dec 2021 03:00:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:00:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.10_summits.bed INFO @ Thu, 09 Dec 2021 03:00:45: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (607 records, 4 fields): 1 millis CompletedMACS2peakCalling 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 @ Thu, 09 Dec 2021 03:01:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.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 @ Thu, 09 Dec 2021 03:01:10: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:01:10: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 03:01:13: #1 tag size is determined as 67 bps INFO @ Thu, 09 Dec 2021 03:01:13: #1 tag size = 67 INFO @ Thu, 09 Dec 2021 03:01:13: #1 total tags in treatment: 475943 INFO @ Thu, 09 Dec 2021 03:01:13: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:01:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:01:13: #1 tags after filtering in treatment: 475943 INFO @ Thu, 09 Dec 2021 03:01:13: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:01:13: #1 finished! INFO @ Thu, 09 Dec 2021 03:01:13: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:01:13: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:01:13: #2 number of paired peaks: 2493 INFO @ Thu, 09 Dec 2021 03:01:13: start model_add_line... INFO @ Thu, 09 Dec 2021 03:01:13: start X-correlation... INFO @ Thu, 09 Dec 2021 03:01:13: end of X-cor INFO @ Thu, 09 Dec 2021 03:01:13: #2 finished! INFO @ Thu, 09 Dec 2021 03:01:13: #2 predicted fragment length is 71 bps INFO @ Thu, 09 Dec 2021 03:01:13: #2 alternative fragment length(s) may be 71 bps INFO @ Thu, 09 Dec 2021 03:01:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.20_model.r WARNING @ Thu, 09 Dec 2021 03:01:13: #2 Since the d (71) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:01:13: #2 You may need to consider one of the other alternative d(s): 71 WARNING @ Thu, 09 Dec 2021 03:01:13: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:01:13: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:01:13: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:01:15: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:01:15: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.20_peaks.xls INFO @ Thu, 09 Dec 2021 03:01:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:01:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331153/SRX8331153.20_summits.bed INFO @ Thu, 09 Dec 2021 03:01:15: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (269 records, 4 fields): 2 millis CompletedMACS2peakCalling