Job ID = 6497527 SRX = SRX495117 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:27:12 prefetch.2.10.7: 1) Downloading 'SRR1198649'... 2020-06-25T22:27:12 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:29:30 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:29:30 prefetch.2.10.7: 1) 'SRR1198649' was downloaded successfully Read 30788149 spots for SRR1198649/SRR1198649.sra Written 30788149 spots for SRR1198649/SRR1198649.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: 00:05:41 30788149 reads; of these: 30788149 (100.00%) were unpaired; of these: 171813 (0.56%) aligned 0 times 25273532 (82.09%) aligned exactly 1 time 5342804 (17.35%) aligned >1 times 99.44% overall alignment rate Time searching: 00:05:41 Overall time: 00:05:41 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 8 files... [bam_rmdupse_core] 4710624 / 30616336 = 0.1539 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 07:42:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.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 07:42:53: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:42:53: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:42:58: 1000000 INFO @ Fri, 26 Jun 2020 07:43:03: 2000000 INFO @ Fri, 26 Jun 2020 07:43:08: 3000000 INFO @ Fri, 26 Jun 2020 07:43:13: 4000000 INFO @ Fri, 26 Jun 2020 07:43:18: 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 @ Fri, 26 Jun 2020 07:43:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.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 07:43:23: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:43:23: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:43:23: 6000000 INFO @ Fri, 26 Jun 2020 07:43:29: 1000000 INFO @ Fri, 26 Jun 2020 07:43:29: 7000000 INFO @ Fri, 26 Jun 2020 07:43:34: 2000000 INFO @ Fri, 26 Jun 2020 07:43:35: 8000000 INFO @ Fri, 26 Jun 2020 07:43:40: 3000000 INFO @ Fri, 26 Jun 2020 07:43:40: 9000000 INFO @ Fri, 26 Jun 2020 07:43:45: 4000000 INFO @ Fri, 26 Jun 2020 07:43:46: 10000000 INFO @ Fri, 26 Jun 2020 07:43:51: 5000000 INFO @ Fri, 26 Jun 2020 07:43:51: 11000000 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 07:43:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.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 07:43:53: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:43:53: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:43:56: 6000000 INFO @ Fri, 26 Jun 2020 07:43:57: 12000000 INFO @ Fri, 26 Jun 2020 07:43:59: 1000000 INFO @ Fri, 26 Jun 2020 07:44:02: 7000000 INFO @ Fri, 26 Jun 2020 07:44:03: 13000000 INFO @ Fri, 26 Jun 2020 07:44:05: 2000000 INFO @ Fri, 26 Jun 2020 07:44:08: 8000000 INFO @ Fri, 26 Jun 2020 07:44:08: 14000000 INFO @ Fri, 26 Jun 2020 07:44:11: 3000000 INFO @ Fri, 26 Jun 2020 07:44:13: 9000000 INFO @ Fri, 26 Jun 2020 07:44:14: 15000000 INFO @ Fri, 26 Jun 2020 07:44:17: 4000000 INFO @ Fri, 26 Jun 2020 07:44:19: 10000000 INFO @ Fri, 26 Jun 2020 07:44:20: 16000000 INFO @ Fri, 26 Jun 2020 07:44:22: 5000000 INFO @ Fri, 26 Jun 2020 07:44:25: 11000000 INFO @ Fri, 26 Jun 2020 07:44:25: 17000000 INFO @ Fri, 26 Jun 2020 07:44:28: 6000000 INFO @ Fri, 26 Jun 2020 07:44:30: 12000000 INFO @ Fri, 26 Jun 2020 07:44:31: 18000000 INFO @ Fri, 26 Jun 2020 07:44:34: 7000000 INFO @ Fri, 26 Jun 2020 07:44:36: 13000000 INFO @ Fri, 26 Jun 2020 07:44:36: 19000000 INFO @ Fri, 26 Jun 2020 07:44:40: 8000000 INFO @ Fri, 26 Jun 2020 07:44:41: 14000000 INFO @ Fri, 26 Jun 2020 07:44:42: 20000000 INFO @ Fri, 26 Jun 2020 07:44:45: 9000000 INFO @ Fri, 26 Jun 2020 07:44:47: 15000000 INFO @ Fri, 26 Jun 2020 07:44:47: 21000000 INFO @ Fri, 26 Jun 2020 07:44:51: 10000000 INFO @ Fri, 26 Jun 2020 07:44:52: 16000000 INFO @ Fri, 26 Jun 2020 07:44:53: 22000000 INFO @ Fri, 26 Jun 2020 07:44:57: 11000000 INFO @ Fri, 26 Jun 2020 07:44:58: 17000000 INFO @ Fri, 26 Jun 2020 07:45:00: 23000000 INFO @ Fri, 26 Jun 2020 07:45:03: 12000000 INFO @ Fri, 26 Jun 2020 07:45:03: 18000000 INFO @ Fri, 26 Jun 2020 07:45:06: 24000000 INFO @ Fri, 26 Jun 2020 07:45:08: 13000000 INFO @ Fri, 26 Jun 2020 07:45:09: 19000000 INFO @ Fri, 26 Jun 2020 07:45:12: 25000000 INFO @ Fri, 26 Jun 2020 07:45:14: 14000000 INFO @ Fri, 26 Jun 2020 07:45:15: 20000000 INFO @ Fri, 26 Jun 2020 07:45:17: #1 tag size is determined as 36 bps INFO @ Fri, 26 Jun 2020 07:45:17: #1 tag size = 36 INFO @ Fri, 26 Jun 2020 07:45:17: #1 total tags in treatment: 25905712 INFO @ Fri, 26 Jun 2020 07:45:17: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:45:17: #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 07:45:17: #1 tags after filtering in treatment: 25905712 INFO @ Fri, 26 Jun 2020 07:45:17: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:45:17: #1 finished! INFO @ Fri, 26 Jun 2020 07:45:17: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:45:17: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:45:19: #2 number of paired peaks: 146 WARNING @ Fri, 26 Jun 2020 07:45:19: Fewer paired peaks (146) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 146 pairs to build model! INFO @ Fri, 26 Jun 2020 07:45:19: start model_add_line... INFO @ Fri, 26 Jun 2020 07:45:19: start X-correlation... INFO @ Fri, 26 Jun 2020 07:45:19: end of X-cor INFO @ Fri, 26 Jun 2020 07:45:19: #2 finished! INFO @ Fri, 26 Jun 2020 07:45:19: #2 predicted fragment length is 0 bps INFO @ Fri, 26 Jun 2020 07:45:19: #2 alternative fragment length(s) may be 0,30,500,534,552,578,598 bps INFO @ Fri, 26 Jun 2020 07:45:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.05_model.r WARNING @ Fri, 26 Jun 2020 07:45:19: #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 07:45:19: #2 You may need to consider one of the other alternative d(s): 0,30,500,534,552,578,598 WARNING @ Fri, 26 Jun 2020 07:45:19: #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 07:45:19: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:45:19: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:45:20: 15000000 INFO @ Fri, 26 Jun 2020 07:45:20: 21000000 INFO @ Fri, 26 Jun 2020 07:45:25: 16000000 INFO @ Fri, 26 Jun 2020 07:45:26: 22000000 INFO @ Fri, 26 Jun 2020 07:45:31: 17000000 INFO @ Fri, 26 Jun 2020 07:45:32: 23000000 INFO @ Fri, 26 Jun 2020 07:45:36: 18000000 INFO @ Fri, 26 Jun 2020 07:45:38: 24000000 INFO @ Fri, 26 Jun 2020 07:45:42: 19000000 INFO @ Fri, 26 Jun 2020 07:45:44: 25000000 INFO @ Fri, 26 Jun 2020 07:45:47: 20000000 INFO @ Fri, 26 Jun 2020 07:45:49: #1 tag size is determined as 36 bps INFO @ Fri, 26 Jun 2020 07:45:49: #1 tag size = 36 INFO @ Fri, 26 Jun 2020 07:45:49: #1 total tags in treatment: 25905712 INFO @ Fri, 26 Jun 2020 07:45:49: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:45:49: #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 07:45:49: #1 tags after filtering in treatment: 25905712 INFO @ Fri, 26 Jun 2020 07:45:49: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:45:49: #1 finished! INFO @ Fri, 26 Jun 2020 07:45:49: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:45:49: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:45:51: #2 number of paired peaks: 146 WARNING @ Fri, 26 Jun 2020 07:45:51: Fewer paired peaks (146) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 146 pairs to build model! INFO @ Fri, 26 Jun 2020 07:45:51: start model_add_line... INFO @ Fri, 26 Jun 2020 07:45:51: start X-correlation... INFO @ Fri, 26 Jun 2020 07:45:51: end of X-cor INFO @ Fri, 26 Jun 2020 07:45:51: #2 finished! INFO @ Fri, 26 Jun 2020 07:45:51: #2 predicted fragment length is 0 bps INFO @ Fri, 26 Jun 2020 07:45:51: #2 alternative fragment length(s) may be 0,30,500,534,552,578,598 bps INFO @ Fri, 26 Jun 2020 07:45:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.10_model.r WARNING @ Fri, 26 Jun 2020 07:45:51: #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 07:45:51: #2 You may need to consider one of the other alternative d(s): 0,30,500,534,552,578,598 WARNING @ Fri, 26 Jun 2020 07:45:51: #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 07:45:51: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:45:51: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:45:53: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:45:58: 22000000 INFO @ Fri, 26 Jun 2020 07:46:04: 23000000 INFO @ Fri, 26 Jun 2020 07:46:10: 24000000 INFO @ Fri, 26 Jun 2020 07:46:16: 25000000 INFO @ Fri, 26 Jun 2020 07:46:21: #1 tag size is determined as 36 bps INFO @ Fri, 26 Jun 2020 07:46:21: #1 tag size = 36 INFO @ Fri, 26 Jun 2020 07:46:21: #1 total tags in treatment: 25905712 INFO @ Fri, 26 Jun 2020 07:46:21: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:46:21: #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 07:46:21: #1 tags after filtering in treatment: 25905712 INFO @ Fri, 26 Jun 2020 07:46:21: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:46:21: #1 finished! INFO @ Fri, 26 Jun 2020 07:46:21: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:46:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:46:23: #2 number of paired peaks: 146 WARNING @ Fri, 26 Jun 2020 07:46:23: Fewer paired peaks (146) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 146 pairs to build model! INFO @ Fri, 26 Jun 2020 07:46:23: start model_add_line... INFO @ Fri, 26 Jun 2020 07:46:23: start X-correlation... INFO @ Fri, 26 Jun 2020 07:46:23: end of X-cor INFO @ Fri, 26 Jun 2020 07:46:23: #2 finished! INFO @ Fri, 26 Jun 2020 07:46:23: #2 predicted fragment length is 0 bps INFO @ Fri, 26 Jun 2020 07:46:23: #2 alternative fragment length(s) may be 0,30,500,534,552,578,598 bps INFO @ Fri, 26 Jun 2020 07:46:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495117/SRX495117.20_model.r WARNING @ Fri, 26 Jun 2020 07:46:23: #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 07:46:23: #2 You may need to consider one of the other alternative d(s): 0,30,500,534,552,578,598 WARNING @ Fri, 26 Jun 2020 07:46:23: #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 07:46:23: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:46:23: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 /var/spool/uge/at150/job_scripts/6497527: line 274: 74450 Terminated MACS $i /var/spool/uge/at150/job_scripts/6497527: line 274: 112101 Terminated MACS $i /var/spool/uge/at150/job_scripts/6497527: line 274: 33718 Terminated MACS $i ls: cannot access SRX495117.05.bed: No such file or directory mv: cannot stat ‘SRX495117.05.bed’: No such file or directory mv: cannot stat ‘SRX495117.05.bb’: No such file or directory ls: cannot access SRX495117.10.bed: No such file or directory mv: cannot stat ‘SRX495117.10.bed’: No such file or directory mv: cannot stat ‘SRX495117.10.bb’: No such file or directory ls: cannot access SRX495117.20.bed: No such file or directory mv: cannot stat ‘SRX495117.20.bed’: No such file or directory mv: cannot stat ‘SRX495117.20.bb’: No such file or directory