Job ID = 6509252 SRX = SRX760499 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-26T15:36:52 prefetch.2.10.7: 1) Downloading 'SRR1653730'... 2020-06-26T15:36:52 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T15:38:55 prefetch.2.10.7: HTTPS download succeed 2020-06-26T15:38:55 prefetch.2.10.7: 1) 'SRR1653730' was downloaded successfully Read 18225579 spots for SRR1653730/SRR1653730.sra Written 18225579 spots for SRR1653730/SRR1653730.sra 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: 00:04:14 18225579 reads; of these: 18225579 (100.00%) were unpaired; of these: 4788417 (26.27%) aligned 0 times 12180874 (66.83%) aligned exactly 1 time 1256288 (6.89%) aligned >1 times 73.73% overall alignment rate Time searching: 00:04:14 Overall time: 00:04:14 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 8 files... [bam_rmdupse_core] 2586667 / 13437162 = 0.1925 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 27 Jun 2020 00:48:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.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, 27 Jun 2020 00:48:01: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:48:01: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:48:06: 1000000 INFO @ Sat, 27 Jun 2020 00:48:12: 2000000 INFO @ Sat, 27 Jun 2020 00:48:18: 3000000 INFO @ Sat, 27 Jun 2020 00:48:23: 4000000 INFO @ Sat, 27 Jun 2020 00:48:29: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 27 Jun 2020 00:48:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.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, 27 Jun 2020 00:48:31: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:48:31: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:48:34: 6000000 INFO @ Sat, 27 Jun 2020 00:48:37: 1000000 INFO @ Sat, 27 Jun 2020 00:48:40: 7000000 INFO @ Sat, 27 Jun 2020 00:48:44: 2000000 INFO @ Sat, 27 Jun 2020 00:48:46: 8000000 INFO @ Sat, 27 Jun 2020 00:48:50: 3000000 INFO @ Sat, 27 Jun 2020 00:48:52: 9000000 INFO @ Sat, 27 Jun 2020 00:48:56: 4000000 BedGraph に変換中... INFO @ Sat, 27 Jun 2020 00:48:59: 10000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 27 Jun 2020 00:49:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.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, 27 Jun 2020 00:49:01: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:49:01: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:49:03: 5000000 INFO @ Sat, 27 Jun 2020 00:49:04: #1 tag size is determined as 49 bps INFO @ Sat, 27 Jun 2020 00:49:04: #1 tag size = 49 INFO @ Sat, 27 Jun 2020 00:49:04: #1 total tags in treatment: 10850495 INFO @ Sat, 27 Jun 2020 00:49:04: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:49:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 00:49:05: #1 tags after filtering in treatment: 10850297 INFO @ Sat, 27 Jun 2020 00:49:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:49:05: #1 finished! INFO @ Sat, 27 Jun 2020 00:49:05: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:49:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 00:49:06: #2 number of paired peaks: 3162 INFO @ Sat, 27 Jun 2020 00:49:06: start model_add_line... INFO @ Sat, 27 Jun 2020 00:49:06: start X-correlation... INFO @ Sat, 27 Jun 2020 00:49:06: end of X-cor INFO @ Sat, 27 Jun 2020 00:49:06: #2 finished! INFO @ Sat, 27 Jun 2020 00:49:06: #2 predicted fragment length is 0 bps INFO @ Sat, 27 Jun 2020 00:49:06: #2 alternative fragment length(s) may be 0 bps INFO @ Sat, 27 Jun 2020 00:49:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.05_model.r WARNING @ Sat, 27 Jun 2020 00:49:06: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 27 Jun 2020 00:49:06: #2 You may need to consider one of the other alternative d(s): 0 WARNING @ Sat, 27 Jun 2020 00:49:06: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 27 Jun 2020 00:49:06: #3 Call peaks... INFO @ Sat, 27 Jun 2020 00:49:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 00:49:07: 1000000 INFO @ Sat, 27 Jun 2020 00:49:09: 6000000 INFO @ Sat, 27 Jun 2020 00:49:13: 2000000 INFO @ Sat, 27 Jun 2020 00:49:16: 7000000 INFO @ Sat, 27 Jun 2020 00:49:19: 3000000 INFO @ Sat, 27 Jun 2020 00:49:22: 8000000 INFO @ Sat, 27 Jun 2020 00:49:26: 4000000 INFO @ Sat, 27 Jun 2020 00:49:29: 9000000 INFO @ Sat, 27 Jun 2020 00:49:32: 5000000 INFO @ Sat, 27 Jun 2020 00:49:36: 10000000 INFO @ Sat, 27 Jun 2020 00:49:38: 6000000 INFO @ Sat, 27 Jun 2020 00:49:42: #1 tag size is determined as 49 bps INFO @ Sat, 27 Jun 2020 00:49:42: #1 tag size = 49 INFO @ Sat, 27 Jun 2020 00:49:42: #1 total tags in treatment: 10850495 INFO @ Sat, 27 Jun 2020 00:49:42: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:49:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 00:49:42: #1 tags after filtering in treatment: 10850297 INFO @ Sat, 27 Jun 2020 00:49:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:49:42: #1 finished! INFO @ Sat, 27 Jun 2020 00:49:42: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:49:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 00:49:43: #2 number of paired peaks: 3162 INFO @ Sat, 27 Jun 2020 00:49:43: start model_add_line... INFO @ Sat, 27 Jun 2020 00:49:43: start X-correlation... INFO @ Sat, 27 Jun 2020 00:49:43: end of X-cor INFO @ Sat, 27 Jun 2020 00:49:43: #2 finished! INFO @ Sat, 27 Jun 2020 00:49:43: #2 predicted fragment length is 0 bps INFO @ Sat, 27 Jun 2020 00:49:43: #2 alternative fragment length(s) may be 0 bps INFO @ Sat, 27 Jun 2020 00:49:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.10_model.r WARNING @ Sat, 27 Jun 2020 00:49:43: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 27 Jun 2020 00:49:43: #2 You may need to consider one of the other alternative d(s): 0 WARNING @ Sat, 27 Jun 2020 00:49:43: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 27 Jun 2020 00:49:43: #3 Call peaks... INFO @ Sat, 27 Jun 2020 00:49:43: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 00:49:44: 7000000 INFO @ Sat, 27 Jun 2020 00:49:50: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 27 Jun 2020 00:49:55: 9000000 INFO @ Sat, 27 Jun 2020 00:50:01: 10000000 INFO @ Sat, 27 Jun 2020 00:50:06: #1 tag size is determined as 49 bps INFO @ Sat, 27 Jun 2020 00:50:06: #1 tag size = 49 INFO @ Sat, 27 Jun 2020 00:50:06: #1 total tags in treatment: 10850495 INFO @ Sat, 27 Jun 2020 00:50:06: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:50:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 00:50:07: #1 tags after filtering in treatment: 10850297 INFO @ Sat, 27 Jun 2020 00:50:07: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:50:07: #1 finished! INFO @ Sat, 27 Jun 2020 00:50:07: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:50:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 00:50:08: #2 number of paired peaks: 3162 INFO @ Sat, 27 Jun 2020 00:50:08: start model_add_line... INFO @ Sat, 27 Jun 2020 00:50:08: start X-correlation... INFO @ Sat, 27 Jun 2020 00:50:08: end of X-cor INFO @ Sat, 27 Jun 2020 00:50:08: #2 finished! INFO @ Sat, 27 Jun 2020 00:50:08: #2 predicted fragment length is 0 bps INFO @ Sat, 27 Jun 2020 00:50:08: #2 alternative fragment length(s) may be 0 bps INFO @ Sat, 27 Jun 2020 00:50:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX760499/SRX760499.20_model.r WARNING @ Sat, 27 Jun 2020 00:50:08: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 27 Jun 2020 00:50:08: #2 You may need to consider one of the other alternative d(s): 0 WARNING @ Sat, 27 Jun 2020 00:50:08: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 27 Jun 2020 00:50:08: #3 Call peaks... INFO @ Sat, 27 Jun 2020 00:50:08: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 /var/spool/uge/at162/job_scripts/6509252: line 274: 11241 Terminated MACS $i /var/spool/uge/at162/job_scripts/6509252: line 274: 19130 Terminated MACS $i /var/spool/uge/at162/job_scripts/6509252: line 274: 19415 Terminated MACS $i ls: cannot access SRX760499.05.bed: No such file or directory mv: cannot stat ‘SRX760499.05.bed’: No such file or directory mv: cannot stat ‘SRX760499.05.bb’: No such file or directory ls: cannot access SRX760499.10.bed: No such file or directory mv: cannot stat ‘SRX760499.10.bed’: No such file or directory mv: cannot stat ‘SRX760499.10.bb’: No such file or directory ls: cannot access SRX760499.20.bed: No such file or directory mv: cannot stat ‘SRX760499.20.bed’: No such file or directory mv: cannot stat ‘SRX760499.20.bb’: No such file or directory