Job ID = 14159418 SRX = SRX9120614 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: 00:15:21 32219704 reads; of these: 32219704 (100.00%) were unpaired; of these: 95046 (0.29%) aligned 0 times 26908443 (83.52%) aligned exactly 1 time 5216215 (16.19%) aligned >1 times 99.71% overall alignment rate Time searching: 00:15:21 Overall time: 00:15:21 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 16 files... [bam_rmdupse_core] 5991888 / 32124658 = 0.1865 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 @ Wed, 08 Dec 2021 22:07:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.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 @ Wed, 08 Dec 2021 22:07:03: #1 read tag files... INFO @ Wed, 08 Dec 2021 22:07:03: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 22:07:14: 1000000 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 @ Wed, 08 Dec 2021 22:07:27: 2000000 INFO @ Wed, 08 Dec 2021 22:07:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.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 @ Wed, 08 Dec 2021 22:07:34: #1 read tag files... INFO @ Wed, 08 Dec 2021 22:07:34: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 22:07:41: 3000000 INFO @ Wed, 08 Dec 2021 22:07:47: 1000000 INFO @ Wed, 08 Dec 2021 22:07:52: 4000000 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 @ Wed, 08 Dec 2021 22:08:00: 2000000 INFO @ Wed, 08 Dec 2021 22:08:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.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 @ Wed, 08 Dec 2021 22:08:02: #1 read tag files... INFO @ Wed, 08 Dec 2021 22:08:02: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 22:08:05: 5000000 INFO @ Wed, 08 Dec 2021 22:08:12: 3000000 INFO @ Wed, 08 Dec 2021 22:08:14: 1000000 INFO @ Wed, 08 Dec 2021 22:08:19: 6000000 INFO @ Wed, 08 Dec 2021 22:08:25: 4000000 INFO @ Wed, 08 Dec 2021 22:08:28: 2000000 INFO @ Wed, 08 Dec 2021 22:08:32: 7000000 INFO @ Wed, 08 Dec 2021 22:08:37: 5000000 INFO @ Wed, 08 Dec 2021 22:08:42: 3000000 INFO @ Wed, 08 Dec 2021 22:08:46: 8000000 INFO @ Wed, 08 Dec 2021 22:08:50: 6000000 INFO @ Wed, 08 Dec 2021 22:08:55: 4000000 INFO @ Wed, 08 Dec 2021 22:08:57: 9000000 INFO @ Wed, 08 Dec 2021 22:09:04: 7000000 INFO @ Wed, 08 Dec 2021 22:09:08: 5000000 INFO @ Wed, 08 Dec 2021 22:09:09: 10000000 INFO @ Wed, 08 Dec 2021 22:09:19: 8000000 INFO @ Wed, 08 Dec 2021 22:09:22: 6000000 INFO @ Wed, 08 Dec 2021 22:09:22: 11000000 INFO @ Wed, 08 Dec 2021 22:09:32: 7000000 INFO @ Wed, 08 Dec 2021 22:09:33: 9000000 INFO @ Wed, 08 Dec 2021 22:09:36: 12000000 INFO @ Wed, 08 Dec 2021 22:09:44: 8000000 INFO @ Wed, 08 Dec 2021 22:09:45: 10000000 INFO @ Wed, 08 Dec 2021 22:09:48: 13000000 INFO @ Wed, 08 Dec 2021 22:09:57: 9000000 INFO @ Wed, 08 Dec 2021 22:09:57: 11000000 INFO @ Wed, 08 Dec 2021 22:10:00: 14000000 INFO @ Wed, 08 Dec 2021 22:10:08: 12000000 INFO @ Wed, 08 Dec 2021 22:10:11: 15000000 INFO @ Wed, 08 Dec 2021 22:10:13: 10000000 INFO @ Wed, 08 Dec 2021 22:10:19: 13000000 INFO @ Wed, 08 Dec 2021 22:10:22: 16000000 INFO @ Wed, 08 Dec 2021 22:10:22: 11000000 INFO @ Wed, 08 Dec 2021 22:10:33: 14000000 INFO @ Wed, 08 Dec 2021 22:10:33: 17000000 INFO @ Wed, 08 Dec 2021 22:10:34: 12000000 INFO @ Wed, 08 Dec 2021 22:10:45: 18000000 INFO @ Wed, 08 Dec 2021 22:10:46: 13000000 INFO @ Wed, 08 Dec 2021 22:10:47: 15000000 INFO @ Wed, 08 Dec 2021 22:11:00: 19000000 INFO @ Wed, 08 Dec 2021 22:11:01: 14000000 INFO @ Wed, 08 Dec 2021 22:11:02: 16000000 INFO @ Wed, 08 Dec 2021 22:11:15: 20000000 INFO @ Wed, 08 Dec 2021 22:11:16: 17000000 INFO @ Wed, 08 Dec 2021 22:11:16: 15000000 INFO @ Wed, 08 Dec 2021 22:11:25: 21000000 INFO @ Wed, 08 Dec 2021 22:11:29: 18000000 INFO @ Wed, 08 Dec 2021 22:11:31: 16000000 INFO @ Wed, 08 Dec 2021 22:11:37: 22000000 INFO @ Wed, 08 Dec 2021 22:11:43: 19000000 INFO @ Wed, 08 Dec 2021 22:11:45: 17000000 INFO @ Wed, 08 Dec 2021 22:11:49: 23000000 INFO @ Wed, 08 Dec 2021 22:11:54: 20000000 INFO @ Wed, 08 Dec 2021 22:11:58: 18000000 INFO @ Wed, 08 Dec 2021 22:12:04: 21000000 INFO @ Wed, 08 Dec 2021 22:12:05: 24000000 INFO @ Wed, 08 Dec 2021 22:12:10: 19000000 INFO @ Wed, 08 Dec 2021 22:12:19: 22000000 INFO @ Wed, 08 Dec 2021 22:12:20: 25000000 INFO @ Wed, 08 Dec 2021 22:12:22: 20000000 INFO @ Wed, 08 Dec 2021 22:12:33: 21000000 INFO @ Wed, 08 Dec 2021 22:12:33: 23000000 INFO @ Wed, 08 Dec 2021 22:12:35: 26000000 INFO @ Wed, 08 Dec 2021 22:12:36: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 22:12:36: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 22:12:36: #1 total tags in treatment: 26132770 INFO @ Wed, 08 Dec 2021 22:12:36: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 22:12:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 22:12:37: #1 tags after filtering in treatment: 26132770 INFO @ Wed, 08 Dec 2021 22:12:37: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 22:12:37: #1 finished! INFO @ Wed, 08 Dec 2021 22:12:37: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 22:12:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 22:12:41: #2 number of paired peaks: 129 WARNING @ Wed, 08 Dec 2021 22:12:41: Fewer paired peaks (129) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 129 pairs to build model! INFO @ Wed, 08 Dec 2021 22:12:41: start model_add_line... INFO @ Wed, 08 Dec 2021 22:12:41: start X-correlation... INFO @ Wed, 08 Dec 2021 22:12:42: end of X-cor INFO @ Wed, 08 Dec 2021 22:12:42: #2 finished! INFO @ Wed, 08 Dec 2021 22:12:42: #2 predicted fragment length is 0 bps INFO @ Wed, 08 Dec 2021 22:12:42: #2 alternative fragment length(s) may be 0,43,506,528,556,583 bps INFO @ Wed, 08 Dec 2021 22:12:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.05_model.r WARNING @ Wed, 08 Dec 2021 22:12:42: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Wed, 08 Dec 2021 22:12:42: #2 You may need to consider one of the other alternative d(s): 0,43,506,528,556,583 WARNING @ Wed, 08 Dec 2021 22:12:42: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Wed, 08 Dec 2021 22:12:42: #3 Call peaks... INFO @ Wed, 08 Dec 2021 22:12:42: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 22:12:43: 22000000 INFO @ Wed, 08 Dec 2021 22:12:44: 24000000 INFO @ Wed, 08 Dec 2021 22:12:54: 23000000 INFO @ Wed, 08 Dec 2021 22:12:55: 25000000 INFO @ Wed, 08 Dec 2021 22:13:06: 26000000 INFO @ Wed, 08 Dec 2021 22:13:07: 24000000 INFO @ Wed, 08 Dec 2021 22:13:08: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 22:13:08: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 22:13:08: #1 total tags in treatment: 26132770 INFO @ Wed, 08 Dec 2021 22:13:08: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 22:13:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 22:13:09: #1 tags after filtering in treatment: 26132770 INFO @ Wed, 08 Dec 2021 22:13:09: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 22:13:09: #1 finished! INFO @ Wed, 08 Dec 2021 22:13:09: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 22:13:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 22:13:12: #2 number of paired peaks: 129 WARNING @ Wed, 08 Dec 2021 22:13:13: Fewer paired peaks (129) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 129 pairs to build model! INFO @ Wed, 08 Dec 2021 22:13:13: start model_add_line... INFO @ Wed, 08 Dec 2021 22:13:13: start X-correlation... INFO @ Wed, 08 Dec 2021 22:13:14: end of X-cor INFO @ Wed, 08 Dec 2021 22:13:14: #2 finished! INFO @ Wed, 08 Dec 2021 22:13:14: #2 predicted fragment length is 0 bps INFO @ Wed, 08 Dec 2021 22:13:14: #2 alternative fragment length(s) may be 0,43,506,528,556,583 bps INFO @ Wed, 08 Dec 2021 22:13:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.10_model.r WARNING @ Wed, 08 Dec 2021 22:13:14: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Wed, 08 Dec 2021 22:13:14: #2 You may need to consider one of the other alternative d(s): 0,43,506,528,556,583 WARNING @ Wed, 08 Dec 2021 22:13:14: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Wed, 08 Dec 2021 22:13:14: #3 Call peaks... INFO @ Wed, 08 Dec 2021 22:13:14: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 22:13:20: 25000000 INFO @ Wed, 08 Dec 2021 22:13:33: 26000000 INFO @ Wed, 08 Dec 2021 22:13:35: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 22:13:35: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 22:13:35: #1 total tags in treatment: 26132770 INFO @ Wed, 08 Dec 2021 22:13:35: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 22:13:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 22:13:36: #1 tags after filtering in treatment: 26132770 INFO @ Wed, 08 Dec 2021 22:13:36: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 22:13:36: #1 finished! INFO @ Wed, 08 Dec 2021 22:13:36: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 22:13:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 22:13:40: #2 number of paired peaks: 129 WARNING @ Wed, 08 Dec 2021 22:13:40: Fewer paired peaks (129) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 129 pairs to build model! INFO @ Wed, 08 Dec 2021 22:13:40: start model_add_line... INFO @ Wed, 08 Dec 2021 22:13:40: start X-correlation... INFO @ Wed, 08 Dec 2021 22:13:41: end of X-cor INFO @ Wed, 08 Dec 2021 22:13:41: #2 finished! INFO @ Wed, 08 Dec 2021 22:13:41: #2 predicted fragment length is 0 bps INFO @ Wed, 08 Dec 2021 22:13:41: #2 alternative fragment length(s) may be 0,43,506,528,556,583 bps INFO @ Wed, 08 Dec 2021 22:13:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.20_model.r WARNING @ Wed, 08 Dec 2021 22:13:41: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Wed, 08 Dec 2021 22:13:41: #2 You may need to consider one of the other alternative d(s): 0,43,506,528,556,583 WARNING @ Wed, 08 Dec 2021 22:13:41: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Wed, 08 Dec 2021 22:13:41: #3 Call peaks... INFO @ Wed, 08 Dec 2021 22:13:41: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 /var/spool/uge/it007/job_scripts/14159418: line 297: 25484 Terminated MACS $i /var/spool/uge/it007/job_scripts/14159418: line 297: 27547 Terminated MACS $i /var/spool/uge/it007/job_scripts/14159418: line 297: 28746 Terminated MACS $i ls: cannot access SRX9120614.05.bed: No such file or directory mv: cannot stat ‘SRX9120614.05.bed’: No such file or directory mv: cannot stat ‘SRX9120614.05.bb’: No such file or directory ls: cannot access SRX9120614.10.bed: No such file or directory mv: cannot stat ‘SRX9120614.10.bed’: No such file or directory mv: cannot stat ‘SRX9120614.10.bb’: No such file or directory ls: cannot access SRX9120614.20.bed: No such file or directory mv: cannot stat ‘SRX9120614.20.bed’: No such file or directory mv: cannot stat ‘SRX9120614.20.bb’: No such file or directory