Job ID = 12265715 SRX = SRX7281028 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 19707433 spots for SRR10601376/SRR10601376.sra Written 19707433 spots for SRR10601376/SRR10601376.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265921 ("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: 00:07:33 19707433 reads; of these: 19707433 (100.00%) were unpaired; of these: 8101210 (41.11%) aligned 0 times 10407465 (52.81%) aligned exactly 1 time 1198758 (6.08%) aligned >1 times 58.89% overall alignment rate Time searching: 00:07:33 Overall time: 00:07:33 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] 4536386 / 11606223 = 0.3909 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 08:31:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.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 08:31:43: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:31:43: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:31:52: 1000000 INFO @ Sat, 03 Apr 2021 08:32:01: 2000000 INFO @ Sat, 03 Apr 2021 08:32:09: 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 08:32:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.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 08:32:13: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:32:13: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:32:18: 4000000 INFO @ Sat, 03 Apr 2021 08:32:22: 1000000 INFO @ Sat, 03 Apr 2021 08:32:27: 5000000 INFO @ Sat, 03 Apr 2021 08:32:31: 2000000 INFO @ Sat, 03 Apr 2021 08:32:36: 6000000 INFO @ Sat, 03 Apr 2021 08:32:40: 3000000 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 08:32:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.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 08:32:43: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:32:43: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:32:45: 7000000 INFO @ Sat, 03 Apr 2021 08:32:46: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:32:46: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:32:46: #1 total tags in treatment: 7069837 INFO @ Sat, 03 Apr 2021 08:32:46: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:32:46: #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 08:32:46: #1 tags after filtering in treatment: 7069837 INFO @ Sat, 03 Apr 2021 08:32:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:32:46: #1 finished! INFO @ Sat, 03 Apr 2021 08:32:46: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:32:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:32:47: #2 number of paired peaks: 4210 INFO @ Sat, 03 Apr 2021 08:32:47: start model_add_line... INFO @ Sat, 03 Apr 2021 08:32:47: start X-correlation... INFO @ Sat, 03 Apr 2021 08:32:47: end of X-cor INFO @ Sat, 03 Apr 2021 08:32:47: #2 finished! INFO @ Sat, 03 Apr 2021 08:32:47: #2 predicted fragment length is 96 bps INFO @ Sat, 03 Apr 2021 08:32:47: #2 alternative fragment length(s) may be 96 bps INFO @ Sat, 03 Apr 2021 08:32:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.05_model.r WARNING @ Sat, 03 Apr 2021 08:32:47: #2 Since the d (96) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:32:47: #2 You may need to consider one of the other alternative d(s): 96 WARNING @ Sat, 03 Apr 2021 08:32:47: #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 08:32:47: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:32:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:32:49: 4000000 INFO @ Sat, 03 Apr 2021 08:32:54: 1000000 INFO @ Sat, 03 Apr 2021 08:32:58: 5000000 INFO @ Sat, 03 Apr 2021 08:33:05: 2000000 INFO @ Sat, 03 Apr 2021 08:33:08: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:33:08: 6000000 INFO @ Sat, 03 Apr 2021 08:33:16: 3000000 INFO @ Sat, 03 Apr 2021 08:33:17: 7000000 INFO @ Sat, 03 Apr 2021 08:33:18: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:33:18: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:33:18: #1 total tags in treatment: 7069837 INFO @ Sat, 03 Apr 2021 08:33:18: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:33:18: #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 08:33:18: #1 tags after filtering in treatment: 7069837 INFO @ Sat, 03 Apr 2021 08:33:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:33:18: #1 finished! INFO @ Sat, 03 Apr 2021 08:33:18: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:33:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:33:19: #2 number of paired peaks: 4210 INFO @ Sat, 03 Apr 2021 08:33:19: start model_add_line... INFO @ Sat, 03 Apr 2021 08:33:19: start X-correlation... INFO @ Sat, 03 Apr 2021 08:33:19: end of X-cor INFO @ Sat, 03 Apr 2021 08:33:19: #2 finished! INFO @ Sat, 03 Apr 2021 08:33:19: #2 predicted fragment length is 96 bps INFO @ Sat, 03 Apr 2021 08:33:19: #2 alternative fragment length(s) may be 96 bps INFO @ Sat, 03 Apr 2021 08:33:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.10_model.r WARNING @ Sat, 03 Apr 2021 08:33:19: #2 Since the d (96) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:33:19: #2 You may need to consider one of the other alternative d(s): 96 WARNING @ Sat, 03 Apr 2021 08:33:19: #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 08:33:19: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:33:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:33:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.05_peaks.xls INFO @ Sat, 03 Apr 2021 08:33:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:33:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.05_summits.bed INFO @ Sat, 03 Apr 2021 08:33:21: Done! pass1 - making usageList (14 chroms): 7 millis pass2 - checking and writing primary data (20319 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:33:26: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 08:33:36: 5000000 INFO @ Sat, 03 Apr 2021 08:33:40: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:33:46: 6000000 INFO @ Sat, 03 Apr 2021 08:33:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.10_peaks.xls INFO @ Sat, 03 Apr 2021 08:33:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:33:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.10_summits.bed INFO @ Sat, 03 Apr 2021 08:33:52: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (12528 records, 4 fields): 16 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 08:33:56: 7000000 INFO @ Sat, 03 Apr 2021 08:33:57: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:33:57: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:33:57: #1 total tags in treatment: 7069837 INFO @ Sat, 03 Apr 2021 08:33:57: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:33:57: #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 08:33:57: #1 tags after filtering in treatment: 7069837 INFO @ Sat, 03 Apr 2021 08:33:57: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:33:57: #1 finished! INFO @ Sat, 03 Apr 2021 08:33:57: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:33:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:33:58: #2 number of paired peaks: 4210 INFO @ Sat, 03 Apr 2021 08:33:58: start model_add_line... INFO @ Sat, 03 Apr 2021 08:33:58: start X-correlation... INFO @ Sat, 03 Apr 2021 08:33:58: end of X-cor INFO @ Sat, 03 Apr 2021 08:33:58: #2 finished! INFO @ Sat, 03 Apr 2021 08:33:58: #2 predicted fragment length is 96 bps INFO @ Sat, 03 Apr 2021 08:33:58: #2 alternative fragment length(s) may be 96 bps INFO @ Sat, 03 Apr 2021 08:33:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.20_model.r WARNING @ Sat, 03 Apr 2021 08:33:58: #2 Since the d (96) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:33:58: #2 You may need to consider one of the other alternative d(s): 96 WARNING @ Sat, 03 Apr 2021 08:33:58: #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 08:33:58: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:33:58: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:34:19: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:34:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.20_peaks.xls INFO @ Sat, 03 Apr 2021 08:34:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:34:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7281028/SRX7281028.20_summits.bed INFO @ Sat, 03 Apr 2021 08:34:30: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (5553 records, 4 fields): 12 millis CompletedMACS2peakCalling