Job ID = 6497528 SRX = SRX495118 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T21:44:10 prefetch.2.10.7: 1) Downloading 'SRR1198650'... 2020-06-25T21:44:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T21:48:17 prefetch.2.10.7: HTTPS download succeed 2020-06-25T21:48:17 prefetch.2.10.7: 1) 'SRR1198650' was downloaded successfully Read 32932978 spots for SRR1198650/SRR1198650.sra Written 32932978 spots for SRR1198650/SRR1198650.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: 00:06:01 32932978 reads; of these: 32932978 (100.00%) were unpaired; of these: 434465 (1.32%) aligned 0 times 27124013 (82.36%) aligned exactly 1 time 5374500 (16.32%) aligned >1 times 98.68% overall alignment rate Time searching: 00:06:01 Overall time: 00:06:01 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 12 files... [bam_rmdupse_core] 6590214 / 32498513 = 0.2028 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 @ Fri, 26 Jun 2020 07:03:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.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 @ Fri, 26 Jun 2020 07:03:59: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:03:59: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:04:04: 1000000 INFO @ Fri, 26 Jun 2020 07:04:10: 2000000 INFO @ Fri, 26 Jun 2020 07:04:16: 3000000 INFO @ Fri, 26 Jun 2020 07:04:22: 4000000 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 @ Fri, 26 Jun 2020 07:04:28: 5000000 INFO @ Fri, 26 Jun 2020 07:04:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.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 @ Fri, 26 Jun 2020 07:04:29: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:04:29: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:04:34: 6000000 INFO @ Fri, 26 Jun 2020 07:04:35: 1000000 INFO @ Fri, 26 Jun 2020 07:04:40: 7000000 INFO @ Fri, 26 Jun 2020 07:04:41: 2000000 INFO @ Fri, 26 Jun 2020 07:04:46: 8000000 INFO @ Fri, 26 Jun 2020 07:04:47: 3000000 INFO @ Fri, 26 Jun 2020 07:04:52: 9000000 INFO @ Fri, 26 Jun 2020 07:04:53: 4000000 BedGraph に変換中... 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 @ Fri, 26 Jun 2020 07:04:58: 10000000 INFO @ Fri, 26 Jun 2020 07:04:59: 5000000 INFO @ Fri, 26 Jun 2020 07:04:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.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 @ Fri, 26 Jun 2020 07:04:59: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:04:59: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:05:04: 11000000 INFO @ Fri, 26 Jun 2020 07:05:05: 6000000 INFO @ Fri, 26 Jun 2020 07:05:05: 1000000 INFO @ Fri, 26 Jun 2020 07:05:11: 12000000 INFO @ Fri, 26 Jun 2020 07:05:11: 7000000 INFO @ Fri, 26 Jun 2020 07:05:11: 2000000 INFO @ Fri, 26 Jun 2020 07:05:17: 8000000 INFO @ Fri, 26 Jun 2020 07:05:17: 13000000 INFO @ Fri, 26 Jun 2020 07:05:18: 3000000 INFO @ Fri, 26 Jun 2020 07:05:23: 14000000 INFO @ Fri, 26 Jun 2020 07:05:23: 9000000 INFO @ Fri, 26 Jun 2020 07:05:24: 4000000 INFO @ Fri, 26 Jun 2020 07:05:29: 15000000 INFO @ Fri, 26 Jun 2020 07:05:29: 10000000 INFO @ Fri, 26 Jun 2020 07:05:30: 5000000 INFO @ Fri, 26 Jun 2020 07:05:35: 16000000 INFO @ Fri, 26 Jun 2020 07:05:35: 11000000 INFO @ Fri, 26 Jun 2020 07:05:36: 6000000 INFO @ Fri, 26 Jun 2020 07:05:41: 17000000 INFO @ Fri, 26 Jun 2020 07:05:41: 12000000 INFO @ Fri, 26 Jun 2020 07:05:42: 7000000 INFO @ Fri, 26 Jun 2020 07:05:48: 18000000 INFO @ Fri, 26 Jun 2020 07:05:48: 13000000 INFO @ Fri, 26 Jun 2020 07:05:49: 8000000 INFO @ Fri, 26 Jun 2020 07:05:54: 19000000 INFO @ Fri, 26 Jun 2020 07:05:54: 14000000 INFO @ Fri, 26 Jun 2020 07:05:55: 9000000 INFO @ Fri, 26 Jun 2020 07:06:00: 15000000 INFO @ Fri, 26 Jun 2020 07:06:00: 20000000 INFO @ Fri, 26 Jun 2020 07:06:02: 10000000 INFO @ Fri, 26 Jun 2020 07:06:06: 21000000 INFO @ Fri, 26 Jun 2020 07:06:06: 16000000 INFO @ Fri, 26 Jun 2020 07:06:08: 11000000 INFO @ Fri, 26 Jun 2020 07:06:12: 22000000 INFO @ Fri, 26 Jun 2020 07:06:13: 17000000 INFO @ Fri, 26 Jun 2020 07:06:15: 12000000 INFO @ Fri, 26 Jun 2020 07:06:19: 23000000 INFO @ Fri, 26 Jun 2020 07:06:19: 18000000 INFO @ Fri, 26 Jun 2020 07:06:21: 13000000 INFO @ Fri, 26 Jun 2020 07:06:25: 24000000 INFO @ Fri, 26 Jun 2020 07:06:25: 19000000 INFO @ Fri, 26 Jun 2020 07:06:27: 14000000 INFO @ Fri, 26 Jun 2020 07:06:31: 25000000 INFO @ Fri, 26 Jun 2020 07:06:31: 20000000 INFO @ Fri, 26 Jun 2020 07:06:34: 15000000 INFO @ Fri, 26 Jun 2020 07:06:37: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:06:37: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:06:37: #1 total tags in treatment: 25908299 INFO @ Fri, 26 Jun 2020 07:06:37: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:06:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:06:37: #1 tags after filtering in treatment: 25908299 INFO @ Fri, 26 Jun 2020 07:06:37: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:06:37: #1 finished! INFO @ Fri, 26 Jun 2020 07:06:37: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:06:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:06:37: 21000000 INFO @ Fri, 26 Jun 2020 07:06:39: #2 number of paired peaks: 134 WARNING @ Fri, 26 Jun 2020 07:06:39: Fewer paired peaks (134) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 134 pairs to build model! INFO @ Fri, 26 Jun 2020 07:06:39: start model_add_line... INFO @ Fri, 26 Jun 2020 07:06:39: start X-correlation... INFO @ Fri, 26 Jun 2020 07:06:39: end of X-cor INFO @ Fri, 26 Jun 2020 07:06:39: #2 finished! INFO @ Fri, 26 Jun 2020 07:06:39: #2 predicted fragment length is 0 bps INFO @ Fri, 26 Jun 2020 07:06:39: #2 alternative fragment length(s) may be 0,15,36,121,252,344,392,492,496,592 bps INFO @ Fri, 26 Jun 2020 07:06:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.05_model.r INFO @ Fri, 26 Jun 2020 07:06:40: 16000000 INFO @ Fri, 26 Jun 2020 07:06:43: 22000000 BedGraph に変換しました。 INFO @ Fri, 26 Jun 2020 07:06:46: 17000000 WARNING @ Fri, 26 Jun 2020 07:06:47: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 26 Jun 2020 07:06:47: #2 You may need to consider one of the other alternative d(s): 0,15,36,121,252,344,392,492,496,592 WARNING @ Fri, 26 Jun 2020 07:06:47: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 26 Jun 2020 07:06:47: #3 Call peaks... BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:06:47: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:06:49: 23000000 INFO @ Fri, 26 Jun 2020 07:06:52: 18000000 INFO @ Fri, 26 Jun 2020 07:06:56: 24000000 INFO @ Fri, 26 Jun 2020 07:06:59: 19000000 INFO @ Fri, 26 Jun 2020 07:07:02: 25000000 INFO @ Fri, 26 Jun 2020 07:07:05: 20000000 INFO @ Fri, 26 Jun 2020 07:07:07: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:07:07: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:07:07: #1 total tags in treatment: 25908299 INFO @ Fri, 26 Jun 2020 07:07:07: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:07:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:07:08: #1 tags after filtering in treatment: 25908299 INFO @ Fri, 26 Jun 2020 07:07:08: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:07:08: #1 finished! INFO @ Fri, 26 Jun 2020 07:07:08: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:07:08: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:07:09: #2 number of paired peaks: 134 WARNING @ Fri, 26 Jun 2020 07:07:09: Fewer paired peaks (134) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 134 pairs to build model! INFO @ Fri, 26 Jun 2020 07:07:09: start model_add_line... INFO @ Fri, 26 Jun 2020 07:07:10: start X-correlation... INFO @ Fri, 26 Jun 2020 07:07:10: end of X-cor INFO @ Fri, 26 Jun 2020 07:07:10: #2 finished! INFO @ Fri, 26 Jun 2020 07:07:10: #2 predicted fragment length is 0 bps INFO @ Fri, 26 Jun 2020 07:07:10: #2 alternative fragment length(s) may be 0,15,36,121,252,344,392,492,496,592 bps INFO @ Fri, 26 Jun 2020 07:07:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.10_model.r INFO @ Fri, 26 Jun 2020 07:07:11: 21000000 INFO @ Fri, 26 Jun 2020 07:07:16: 22000000 INFO @ Fri, 26 Jun 2020 07:07:22: 23000000 INFO @ Fri, 26 Jun 2020 07:07:28: 24000000 INFO @ Fri, 26 Jun 2020 07:07:34: 25000000 INFO @ Fri, 26 Jun 2020 07:07:39: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:07:39: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:07:39: #1 total tags in treatment: 25908299 INFO @ Fri, 26 Jun 2020 07:07:39: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:07:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:07:40: #1 tags after filtering in treatment: 25908299 INFO @ Fri, 26 Jun 2020 07:07:40: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:07:40: #1 finished! INFO @ Fri, 26 Jun 2020 07:07:40: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:07:40: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:07:41: #2 number of paired peaks: 134 WARNING @ Fri, 26 Jun 2020 07:07:41: Fewer paired peaks (134) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 134 pairs to build model! INFO @ Fri, 26 Jun 2020 07:07:41: start model_add_line... INFO @ Fri, 26 Jun 2020 07:07:41: start X-correlation... INFO @ Fri, 26 Jun 2020 07:07:41: end of X-cor INFO @ Fri, 26 Jun 2020 07:07:41: #2 finished! INFO @ Fri, 26 Jun 2020 07:07:41: #2 predicted fragment length is 0 bps INFO @ Fri, 26 Jun 2020 07:07:41: #2 alternative fragment length(s) may be 0,15,36,121,252,344,392,492,496,592 bps INFO @ Fri, 26 Jun 2020 07:07:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495118/SRX495118.20_model.r WARNING @ Fri, 26 Jun 2020 07:07:49: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 26 Jun 2020 07:07:49: #2 You may need to consider one of the other alternative d(s): 0,15,36,121,252,344,392,492,496,592 WARNING @ Fri, 26 Jun 2020 07:07:49: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 26 Jun 2020 07:07:49: #3 Call peaks... WARNING @ Fri, 26 Jun 2020 07:07:49: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 26 Jun 2020 07:07:49: #2 You may need to consider one of the other alternative d(s): 0,15,36,121,252,344,392,492,496,592 WARNING @ Fri, 26 Jun 2020 07:07:49: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 26 Jun 2020 07:07:49: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:07:49: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:07:49: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 /var/spool/uge/at150/job_scripts/6497528: line 274: 41288 Terminated MACS $i /var/spool/uge/at150/job_scripts/6497528: line 274: 49996 Terminated MACS $i /var/spool/uge/at150/job_scripts/6497528: line 274: 50647 Terminated MACS $i ls: cannot access SRX495118.05.bed: No such file or directory mv: cannot stat ‘SRX495118.05.bed’: No such file or directory mv: cannot stat ‘SRX495118.05.bb’: No such file or directory ls: cannot access SRX495118.10.bed: No such file or directory mv: cannot stat ‘SRX495118.10.bed’: No such file or directory mv: cannot stat ‘SRX495118.10.bb’: No such file or directory ls: cannot access SRX495118.20.bed: No such file or directory mv: cannot stat ‘SRX495118.20.bed’: No such file or directory mv: cannot stat ‘SRX495118.20.bb’: No such file or directory