Job ID = 12266591 SRX = SRX7282927 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 15307175 spots for SRR10603286/SRR10603286.sra Written 15307175 spots for SRR10603286/SRR10603286.sra fastq に変換しました。 bowtie でマッピング中... Your job 12266824 ("srTdm6") 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: 00:03:55 15307175 reads; of these: 15307175 (100.00%) were unpaired; of these: 2217307 (14.49%) aligned 0 times 11958703 (78.12%) aligned exactly 1 time 1131165 (7.39%) aligned >1 times 85.51% overall alignment rate Time searching: 00:03:55 Overall time: 00:03:55 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 6351237 / 13089868 = 0.4852 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 09:09:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.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 09:09:15: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:09:15: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:09:22: 1000000 INFO @ Sat, 03 Apr 2021 09:09:29: 2000000 INFO @ Sat, 03 Apr 2021 09:09:36: 3000000 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 09:09:43: 4000000 INFO @ Sat, 03 Apr 2021 09:09:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.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 09:09:45: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:09:45: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:09:51: 5000000 INFO @ Sat, 03 Apr 2021 09:09:52: 1000000 INFO @ Sat, 03 Apr 2021 09:09:59: 2000000 INFO @ Sat, 03 Apr 2021 09:10:00: 6000000 INFO @ Sat, 03 Apr 2021 09:10:06: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:10:06: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:10:06: #1 total tags in treatment: 6738631 INFO @ Sat, 03 Apr 2021 09:10:06: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:10:06: #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 09:10:06: #1 tags after filtering in treatment: 6738631 INFO @ Sat, 03 Apr 2021 09:10:06: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:10:06: #1 finished! INFO @ Sat, 03 Apr 2021 09:10:06: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:10:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:10:07: #2 number of paired peaks: 6287 INFO @ Sat, 03 Apr 2021 09:10:07: start model_add_line... INFO @ Sat, 03 Apr 2021 09:10:07: 3000000 INFO @ Sat, 03 Apr 2021 09:10:07: start X-correlation... INFO @ Sat, 03 Apr 2021 09:10:07: end of X-cor INFO @ Sat, 03 Apr 2021 09:10:07: #2 finished! INFO @ Sat, 03 Apr 2021 09:10:07: #2 predicted fragment length is 79 bps INFO @ Sat, 03 Apr 2021 09:10:07: #2 alternative fragment length(s) may be 79 bps INFO @ Sat, 03 Apr 2021 09:10:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.05_model.r WARNING @ Sat, 03 Apr 2021 09:10:07: #2 Since the d (79) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 09:10:07: #2 You may need to consider one of the other alternative d(s): 79 WARNING @ Sat, 03 Apr 2021 09:10:07: #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 09:10:07: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:10:07: #3 Pre-compute pvalue-qvalue table... 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 09:10:13: 4000000 INFO @ Sat, 03 Apr 2021 09:10:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.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 09:10:15: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:10:15: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:10:20: 5000000 INFO @ Sat, 03 Apr 2021 09:10:23: 1000000 INFO @ Sat, 03 Apr 2021 09:10:24: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:10:28: 6000000 INFO @ Sat, 03 Apr 2021 09:10:31: 2000000 INFO @ Sat, 03 Apr 2021 09:10:33: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:10:33: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:10:33: #1 total tags in treatment: 6738631 INFO @ Sat, 03 Apr 2021 09:10:33: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:10:33: #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 09:10:33: #1 tags after filtering in treatment: 6738631 INFO @ Sat, 03 Apr 2021 09:10:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:10:33: #1 finished! INFO @ Sat, 03 Apr 2021 09:10:33: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:10:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:10:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.05_peaks.xls INFO @ Sat, 03 Apr 2021 09:10:34: #2 number of paired peaks: 6287 INFO @ Sat, 03 Apr 2021 09:10:34: start model_add_line... INFO @ Sat, 03 Apr 2021 09:10:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:10:34: start X-correlation... INFO @ Sat, 03 Apr 2021 09:10:34: end of X-cor INFO @ Sat, 03 Apr 2021 09:10:34: #2 finished! INFO @ Sat, 03 Apr 2021 09:10:34: #2 predicted fragment length is 79 bps INFO @ Sat, 03 Apr 2021 09:10:34: #2 alternative fragment length(s) may be 79 bps INFO @ Sat, 03 Apr 2021 09:10:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.10_model.r WARNING @ Sat, 03 Apr 2021 09:10:34: #2 Since the d (79) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 09:10:34: #2 You may need to consider one of the other alternative d(s): 79 WARNING @ Sat, 03 Apr 2021 09:10:34: #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 09:10:34: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:10:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:10:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.05_summits.bed INFO @ Sat, 03 Apr 2021 09:10:34: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (22841 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 09:10:38: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 09:10:45: 4000000 INFO @ Sat, 03 Apr 2021 09:10:50: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:10:52: 5000000 BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 09:10:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.10_peaks.xls INFO @ Sat, 03 Apr 2021 09:10:59: 6000000 INFO @ Sat, 03 Apr 2021 09:11:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:11:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.10_summits.bed INFO @ Sat, 03 Apr 2021 09:11:00: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (14426 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 09:11:05: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:11:05: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:11:05: #1 total tags in treatment: 6738631 INFO @ Sat, 03 Apr 2021 09:11:05: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:11:05: #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 09:11:05: #1 tags after filtering in treatment: 6738631 INFO @ Sat, 03 Apr 2021 09:11:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:11:05: #1 finished! INFO @ Sat, 03 Apr 2021 09:11:05: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:11:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:11:05: #2 number of paired peaks: 6287 INFO @ Sat, 03 Apr 2021 09:11:05: start model_add_line... INFO @ Sat, 03 Apr 2021 09:11:06: start X-correlation... INFO @ Sat, 03 Apr 2021 09:11:06: end of X-cor INFO @ Sat, 03 Apr 2021 09:11:06: #2 finished! INFO @ Sat, 03 Apr 2021 09:11:06: #2 predicted fragment length is 79 bps INFO @ Sat, 03 Apr 2021 09:11:06: #2 alternative fragment length(s) may be 79 bps INFO @ Sat, 03 Apr 2021 09:11:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.20_model.r WARNING @ Sat, 03 Apr 2021 09:11:06: #2 Since the d (79) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 09:11:06: #2 You may need to consider one of the other alternative d(s): 79 WARNING @ Sat, 03 Apr 2021 09:11:06: #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 09:11:06: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:11:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:11:21: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:11:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.20_peaks.xls INFO @ Sat, 03 Apr 2021 09:11:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:11:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282927/SRX7282927.20_summits.bed INFO @ Sat, 03 Apr 2021 09:11:29: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (6517 records, 4 fields): 7 millis CompletedMACS2peakCalling