Job ID = 6529096 SRX = SRX172526 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:07:14 32252152 reads; of these: 32252152 (100.00%) were unpaired; of these: 2876149 (8.92%) aligned 0 times 23296131 (72.23%) aligned exactly 1 time 6079872 (18.85%) aligned >1 times 91.08% overall alignment rate Time searching: 00:07:15 Overall time: 00:07:15 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] 6187756 / 29376003 = 0.2106 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 @ Tue, 30 Jun 2020 01:48:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.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 @ Tue, 30 Jun 2020 01:48:32: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:48:32: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:48:38: 1000000 INFO @ Tue, 30 Jun 2020 01:48:43: 2000000 INFO @ Tue, 30 Jun 2020 01:48:49: 3000000 INFO @ Tue, 30 Jun 2020 01:48:55: 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 @ Tue, 30 Jun 2020 01:49:00: 5000000 INFO @ Tue, 30 Jun 2020 01:49:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.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 @ Tue, 30 Jun 2020 01:49:02: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:49:02: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:49:06: 6000000 INFO @ Tue, 30 Jun 2020 01:49:08: 1000000 INFO @ Tue, 30 Jun 2020 01:49:12: 7000000 INFO @ Tue, 30 Jun 2020 01:49:15: 2000000 INFO @ Tue, 30 Jun 2020 01:49:17: 8000000 INFO @ Tue, 30 Jun 2020 01:49:21: 3000000 INFO @ Tue, 30 Jun 2020 01:49:23: 9000000 INFO @ Tue, 30 Jun 2020 01:49:27: 4000000 INFO @ Tue, 30 Jun 2020 01:49:29: 10000000 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 @ Tue, 30 Jun 2020 01:49:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.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 @ Tue, 30 Jun 2020 01:49:32: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:49:32: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:49:33: 5000000 INFO @ Tue, 30 Jun 2020 01:49:35: 11000000 INFO @ Tue, 30 Jun 2020 01:49:39: 1000000 INFO @ Tue, 30 Jun 2020 01:49:40: 6000000 INFO @ Tue, 30 Jun 2020 01:49:40: 12000000 INFO @ Tue, 30 Jun 2020 01:49:46: 2000000 INFO @ Tue, 30 Jun 2020 01:49:46: 13000000 INFO @ Tue, 30 Jun 2020 01:49:46: 7000000 INFO @ Tue, 30 Jun 2020 01:49:52: 14000000 INFO @ Tue, 30 Jun 2020 01:49:52: 3000000 INFO @ Tue, 30 Jun 2020 01:49:53: 8000000 INFO @ Tue, 30 Jun 2020 01:49:58: 15000000 INFO @ Tue, 30 Jun 2020 01:49:59: 4000000 INFO @ Tue, 30 Jun 2020 01:49:59: 9000000 INFO @ Tue, 30 Jun 2020 01:50:04: 16000000 INFO @ Tue, 30 Jun 2020 01:50:06: 5000000 INFO @ Tue, 30 Jun 2020 01:50:06: 10000000 INFO @ Tue, 30 Jun 2020 01:50:09: 17000000 INFO @ Tue, 30 Jun 2020 01:50:12: 6000000 INFO @ Tue, 30 Jun 2020 01:50:13: 11000000 INFO @ Tue, 30 Jun 2020 01:50:15: 18000000 INFO @ Tue, 30 Jun 2020 01:50:19: 7000000 INFO @ Tue, 30 Jun 2020 01:50:19: 12000000 INFO @ Tue, 30 Jun 2020 01:50:21: 19000000 INFO @ Tue, 30 Jun 2020 01:50:25: 8000000 INFO @ Tue, 30 Jun 2020 01:50:26: 13000000 INFO @ Tue, 30 Jun 2020 01:50:26: 20000000 INFO @ Tue, 30 Jun 2020 01:50:32: 9000000 INFO @ Tue, 30 Jun 2020 01:50:32: 14000000 INFO @ Tue, 30 Jun 2020 01:50:32: 21000000 INFO @ Tue, 30 Jun 2020 01:50:38: 22000000 INFO @ Tue, 30 Jun 2020 01:50:39: 10000000 INFO @ Tue, 30 Jun 2020 01:50:39: 15000000 INFO @ Tue, 30 Jun 2020 01:50:44: 23000000 INFO @ Tue, 30 Jun 2020 01:50:45: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:50:45: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:50:45: #1 total tags in treatment: 23188247 INFO @ Tue, 30 Jun 2020 01:50:45: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:50:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:50:45: 11000000 INFO @ Tue, 30 Jun 2020 01:50:45: 16000000 INFO @ Tue, 30 Jun 2020 01:50:45: #1 tags after filtering in treatment: 23188247 INFO @ Tue, 30 Jun 2020 01:50:45: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:50:45: #1 finished! INFO @ Tue, 30 Jun 2020 01:50:45: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:50:45: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:50:47: #2 number of paired peaks: 220 WARNING @ Tue, 30 Jun 2020 01:50:47: Fewer paired peaks (220) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 220 pairs to build model! INFO @ Tue, 30 Jun 2020 01:50:47: start model_add_line... INFO @ Tue, 30 Jun 2020 01:50:47: start X-correlation... INFO @ Tue, 30 Jun 2020 01:50:47: end of X-cor INFO @ Tue, 30 Jun 2020 01:50:47: #2 finished! INFO @ Tue, 30 Jun 2020 01:50:47: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 01:50:47: #2 alternative fragment length(s) may be 0,24,45,541 bps INFO @ Tue, 30 Jun 2020 01:50:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.05_model.r WARNING @ Tue, 30 Jun 2020 01:50:47: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:50:47: #2 You may need to consider one of the other alternative d(s): 0,24,45,541 WARNING @ Tue, 30 Jun 2020 01:50:47: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 01:50:47: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:50:47: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:50:52: 17000000 INFO @ Tue, 30 Jun 2020 01:50:52: 12000000 INFO @ Tue, 30 Jun 2020 01:50:58: 18000000 INFO @ Tue, 30 Jun 2020 01:50:58: 13000000 INFO @ Tue, 30 Jun 2020 01:51:05: 19000000 INFO @ Tue, 30 Jun 2020 01:51:05: 14000000 INFO @ Tue, 30 Jun 2020 01:51:11: 20000000 INFO @ Tue, 30 Jun 2020 01:51:12: 15000000 INFO @ Tue, 30 Jun 2020 01:51:18: 21000000 INFO @ Tue, 30 Jun 2020 01:51:18: 16000000 INFO @ Tue, 30 Jun 2020 01:51:24: 22000000 INFO @ Tue, 30 Jun 2020 01:51:25: 17000000 INFO @ Tue, 30 Jun 2020 01:51:31: 23000000 INFO @ Tue, 30 Jun 2020 01:51:31: 18000000 INFO @ Tue, 30 Jun 2020 01:51:32: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:51:32: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:51:32: #1 total tags in treatment: 23188247 INFO @ Tue, 30 Jun 2020 01:51:32: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:51:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:51:33: #1 tags after filtering in treatment: 23188247 INFO @ Tue, 30 Jun 2020 01:51:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:51:33: #1 finished! INFO @ Tue, 30 Jun 2020 01:51:33: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:51:33: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:51:34: #2 number of paired peaks: 220 WARNING @ Tue, 30 Jun 2020 01:51:34: Fewer paired peaks (220) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 220 pairs to build model! INFO @ Tue, 30 Jun 2020 01:51:34: start model_add_line... INFO @ Tue, 30 Jun 2020 01:51:34: start X-correlation... INFO @ Tue, 30 Jun 2020 01:51:34: end of X-cor INFO @ Tue, 30 Jun 2020 01:51:34: #2 finished! INFO @ Tue, 30 Jun 2020 01:51:34: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 01:51:34: #2 alternative fragment length(s) may be 0,24,45,541 bps INFO @ Tue, 30 Jun 2020 01:51:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.10_model.r WARNING @ Tue, 30 Jun 2020 01:51:34: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:51:34: #2 You may need to consider one of the other alternative d(s): 0,24,45,541 WARNING @ Tue, 30 Jun 2020 01:51:34: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 01:51:34: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:51:34: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:51:37: 19000000 INFO @ Tue, 30 Jun 2020 01:51:44: 20000000 INFO @ Tue, 30 Jun 2020 01:51:49: 21000000 INFO @ Tue, 30 Jun 2020 01:51:56: 22000000 INFO @ Tue, 30 Jun 2020 01:52:02: 23000000 INFO @ Tue, 30 Jun 2020 01:52:03: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:52:03: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:52:03: #1 total tags in treatment: 23188247 INFO @ Tue, 30 Jun 2020 01:52:03: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:52:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:52:04: #1 tags after filtering in treatment: 23188247 INFO @ Tue, 30 Jun 2020 01:52:04: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:52:04: #1 finished! INFO @ Tue, 30 Jun 2020 01:52:04: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:52:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:52:05: #2 number of paired peaks: 220 WARNING @ Tue, 30 Jun 2020 01:52:05: Fewer paired peaks (220) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 220 pairs to build model! INFO @ Tue, 30 Jun 2020 01:52:05: start model_add_line... INFO @ Tue, 30 Jun 2020 01:52:05: start X-correlation... INFO @ Tue, 30 Jun 2020 01:52:05: end of X-cor INFO @ Tue, 30 Jun 2020 01:52:05: #2 finished! INFO @ Tue, 30 Jun 2020 01:52:05: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 01:52:05: #2 alternative fragment length(s) may be 0,24,45,541 bps INFO @ Tue, 30 Jun 2020 01:52:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX172526/SRX172526.20_model.r WARNING @ Tue, 30 Jun 2020 01:52:05: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:52:05: #2 You may need to consider one of the other alternative d(s): 0,24,45,541 WARNING @ Tue, 30 Jun 2020 01:52:05: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 01:52:05: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:52:05: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 /var/spool/uge/it039/job_scripts/6529096: line 293: 25694 Terminated MACS $i /var/spool/uge/it039/job_scripts/6529096: line 293: 25802 Terminated MACS $i /var/spool/uge/it039/job_scripts/6529096: line 293: 25886 Terminated MACS $i ls: cannot access SRX172526.05.bed: No such file or directory mv: cannot stat ‘SRX172526.05.bed’: No such file or directory mv: cannot stat ‘SRX172526.05.bb’: No such file or directory ls: cannot access SRX172526.10.bed: No such file or directory mv: cannot stat ‘SRX172526.10.bed’: No such file or directory mv: cannot stat ‘SRX172526.10.bb’: No such file or directory ls: cannot access SRX172526.20.bed: No such file or directory mv: cannot stat ‘SRX172526.20.bed’: No such file or directory mv: cannot stat ‘SRX172526.20.bb’: No such file or directory