Job ID = 6529960 SRX = SRX5436051 Genome = dm6 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: 00:10:58 43826563 reads; of these: 43826563 (100.00%) were unpaired; of these: 1917243 (4.37%) aligned 0 times 31131076 (71.03%) aligned exactly 1 time 10778244 (24.59%) aligned >1 times 95.63% overall alignment rate Time searching: 00:10:58 Overall time: 00:10:58 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 20 files... [bam_rmdupse_core] 7495222 / 41909320 = 0.1788 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 03:31:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.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 @ Tue, 30 Jun 2020 03:31:59: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:31:59: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:32:04: 1000000 INFO @ Tue, 30 Jun 2020 03:32:08: 2000000 INFO @ Tue, 30 Jun 2020 03:32:13: 3000000 INFO @ Tue, 30 Jun 2020 03:32:18: 4000000 INFO @ Tue, 30 Jun 2020 03:32:23: 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 @ Tue, 30 Jun 2020 03:32:28: 6000000 INFO @ Tue, 30 Jun 2020 03:32:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.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 @ Tue, 30 Jun 2020 03:32:29: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:32:29: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:32:33: 7000000 INFO @ Tue, 30 Jun 2020 03:32:34: 1000000 INFO @ Tue, 30 Jun 2020 03:32:38: 8000000 INFO @ Tue, 30 Jun 2020 03:32:39: 2000000 INFO @ Tue, 30 Jun 2020 03:32:43: 9000000 INFO @ Tue, 30 Jun 2020 03:32:44: 3000000 INFO @ Tue, 30 Jun 2020 03:32:48: 10000000 INFO @ Tue, 30 Jun 2020 03:32:49: 4000000 INFO @ Tue, 30 Jun 2020 03:32:53: 11000000 INFO @ Tue, 30 Jun 2020 03:32:54: 5000000 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 03:32:58: 12000000 INFO @ Tue, 30 Jun 2020 03:32:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.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 @ Tue, 30 Jun 2020 03:32:59: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:32:59: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:32:59: 6000000 INFO @ Tue, 30 Jun 2020 03:33:03: 13000000 INFO @ Tue, 30 Jun 2020 03:33:05: 1000000 INFO @ Tue, 30 Jun 2020 03:33:05: 7000000 INFO @ Tue, 30 Jun 2020 03:33:09: 14000000 INFO @ Tue, 30 Jun 2020 03:33:10: 8000000 INFO @ Tue, 30 Jun 2020 03:33:10: 2000000 INFO @ Tue, 30 Jun 2020 03:33:14: 15000000 INFO @ Tue, 30 Jun 2020 03:33:16: 9000000 INFO @ Tue, 30 Jun 2020 03:33:16: 3000000 INFO @ Tue, 30 Jun 2020 03:33:20: 16000000 INFO @ Tue, 30 Jun 2020 03:33:21: 10000000 INFO @ Tue, 30 Jun 2020 03:33:21: 4000000 INFO @ Tue, 30 Jun 2020 03:33:25: 17000000 INFO @ Tue, 30 Jun 2020 03:33:26: 11000000 INFO @ Tue, 30 Jun 2020 03:33:26: 5000000 INFO @ Tue, 30 Jun 2020 03:33:30: 18000000 INFO @ Tue, 30 Jun 2020 03:33:31: 12000000 INFO @ Tue, 30 Jun 2020 03:33:33: 6000000 INFO @ Tue, 30 Jun 2020 03:33:36: 19000000 INFO @ Tue, 30 Jun 2020 03:33:37: 13000000 INFO @ Tue, 30 Jun 2020 03:33:38: 7000000 INFO @ Tue, 30 Jun 2020 03:33:41: 20000000 INFO @ Tue, 30 Jun 2020 03:33:42: 14000000 INFO @ Tue, 30 Jun 2020 03:33:44: 8000000 INFO @ Tue, 30 Jun 2020 03:33:47: 21000000 INFO @ Tue, 30 Jun 2020 03:33:47: 15000000 INFO @ Tue, 30 Jun 2020 03:33:49: 9000000 INFO @ Tue, 30 Jun 2020 03:33:52: 22000000 INFO @ Tue, 30 Jun 2020 03:33:53: 16000000 INFO @ Tue, 30 Jun 2020 03:33:54: 10000000 INFO @ Tue, 30 Jun 2020 03:33:57: 23000000 INFO @ Tue, 30 Jun 2020 03:33:58: 17000000 INFO @ Tue, 30 Jun 2020 03:33:59: 11000000 INFO @ Tue, 30 Jun 2020 03:34:02: 24000000 INFO @ Tue, 30 Jun 2020 03:34:03: 18000000 INFO @ Tue, 30 Jun 2020 03:34:05: 12000000 INFO @ Tue, 30 Jun 2020 03:34:08: 25000000 INFO @ Tue, 30 Jun 2020 03:34:09: 19000000 INFO @ Tue, 30 Jun 2020 03:34:11: 13000000 INFO @ Tue, 30 Jun 2020 03:34:13: 26000000 INFO @ Tue, 30 Jun 2020 03:34:15: 20000000 INFO @ Tue, 30 Jun 2020 03:34:16: 14000000 INFO @ Tue, 30 Jun 2020 03:34:19: 27000000 INFO @ Tue, 30 Jun 2020 03:34:20: 21000000 INFO @ Tue, 30 Jun 2020 03:34:22: 15000000 INFO @ Tue, 30 Jun 2020 03:34:24: 28000000 INFO @ Tue, 30 Jun 2020 03:34:26: 22000000 INFO @ Tue, 30 Jun 2020 03:34:27: 16000000 INFO @ Tue, 30 Jun 2020 03:34:30: 29000000 INFO @ Tue, 30 Jun 2020 03:34:31: 23000000 INFO @ Tue, 30 Jun 2020 03:34:32: 17000000 INFO @ Tue, 30 Jun 2020 03:34:35: 30000000 INFO @ Tue, 30 Jun 2020 03:34:36: 24000000 INFO @ Tue, 30 Jun 2020 03:34:37: 18000000 INFO @ Tue, 30 Jun 2020 03:34:41: 31000000 INFO @ Tue, 30 Jun 2020 03:34:41: 25000000 INFO @ Tue, 30 Jun 2020 03:34:43: 19000000 INFO @ Tue, 30 Jun 2020 03:34:46: 32000000 INFO @ Tue, 30 Jun 2020 03:34:47: 26000000 INFO @ Tue, 30 Jun 2020 03:34:49: 20000000 INFO @ Tue, 30 Jun 2020 03:34:51: 33000000 INFO @ Tue, 30 Jun 2020 03:34:53: 27000000 INFO @ Tue, 30 Jun 2020 03:34:55: 21000000 INFO @ Tue, 30 Jun 2020 03:34:57: 34000000 INFO @ Tue, 30 Jun 2020 03:34:58: 28000000 INFO @ Tue, 30 Jun 2020 03:35:00: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:35:00: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:35:00: #1 total tags in treatment: 34414098 INFO @ Tue, 30 Jun 2020 03:35:00: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:35:00: #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 03:35:00: 22000000 INFO @ Tue, 30 Jun 2020 03:35:01: #1 tags after filtering in treatment: 34414051 INFO @ Tue, 30 Jun 2020 03:35:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:35:01: #1 finished! INFO @ Tue, 30 Jun 2020 03:35:01: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:35:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:35:03: #2 number of paired peaks: 346 WARNING @ Tue, 30 Jun 2020 03:35:03: Fewer paired peaks (346) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 346 pairs to build model! INFO @ Tue, 30 Jun 2020 03:35:03: start model_add_line... INFO @ Tue, 30 Jun 2020 03:35:03: start X-correlation... INFO @ Tue, 30 Jun 2020 03:35:03: end of X-cor INFO @ Tue, 30 Jun 2020 03:35:03: #2 finished! INFO @ Tue, 30 Jun 2020 03:35:03: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:35:03: #2 alternative fragment length(s) may be 0,42,593,597 bps INFO @ Tue, 30 Jun 2020 03:35:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.05_model.r WARNING @ Tue, 30 Jun 2020 03:35:03: #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 03:35:03: #2 You may need to consider one of the other alternative d(s): 0,42,593,597 WARNING @ Tue, 30 Jun 2020 03:35:03: #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 03:35:03: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:35:03: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:35:04: 29000000 INFO @ Tue, 30 Jun 2020 03:35:05: 23000000 INFO @ Tue, 30 Jun 2020 03:35:09: 30000000 INFO @ Tue, 30 Jun 2020 03:35:10: 24000000 INFO @ Tue, 30 Jun 2020 03:35:14: 31000000 INFO @ Tue, 30 Jun 2020 03:35:15: 25000000 INFO @ Tue, 30 Jun 2020 03:35:19: 32000000 INFO @ Tue, 30 Jun 2020 03:35:20: 26000000 INFO @ Tue, 30 Jun 2020 03:35:24: 33000000 INFO @ Tue, 30 Jun 2020 03:35:25: 27000000 INFO @ Tue, 30 Jun 2020 03:35:30: 34000000 INFO @ Tue, 30 Jun 2020 03:35:30: 28000000 INFO @ Tue, 30 Jun 2020 03:35:32: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:35:32: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:35:32: #1 total tags in treatment: 34414098 INFO @ Tue, 30 Jun 2020 03:35:32: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:35:32: #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 03:35:33: #1 tags after filtering in treatment: 34414051 INFO @ Tue, 30 Jun 2020 03:35:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:35:33: #1 finished! INFO @ Tue, 30 Jun 2020 03:35:33: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:35:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:35:35: #2 number of paired peaks: 346 WARNING @ Tue, 30 Jun 2020 03:35:35: Fewer paired peaks (346) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 346 pairs to build model! INFO @ Tue, 30 Jun 2020 03:35:35: start model_add_line... INFO @ Tue, 30 Jun 2020 03:35:36: start X-correlation... INFO @ Tue, 30 Jun 2020 03:35:36: end of X-cor INFO @ Tue, 30 Jun 2020 03:35:36: #2 finished! INFO @ Tue, 30 Jun 2020 03:35:36: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:35:36: #2 alternative fragment length(s) may be 0,42,593,597 bps INFO @ Tue, 30 Jun 2020 03:35:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.10_model.r WARNING @ Tue, 30 Jun 2020 03:35:36: #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 03:35:36: #2 You may need to consider one of the other alternative d(s): 0,42,593,597 WARNING @ Tue, 30 Jun 2020 03:35:36: #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 03:35:36: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:35:36: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:35:36: 29000000 INFO @ Tue, 30 Jun 2020 03:35:41: 30000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:35:46: 31000000 INFO @ Tue, 30 Jun 2020 03:35:51: 32000000 INFO @ Tue, 30 Jun 2020 03:35:55: 33000000 INFO @ Tue, 30 Jun 2020 03:36:01: 34000000 INFO @ Tue, 30 Jun 2020 03:36:03: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:36:03: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:36:03: #1 total tags in treatment: 34414098 INFO @ Tue, 30 Jun 2020 03:36:03: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:36:03: #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 03:36:04: #1 tags after filtering in treatment: 34414051 INFO @ Tue, 30 Jun 2020 03:36:04: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:36:04: #1 finished! INFO @ Tue, 30 Jun 2020 03:36:04: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:36:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:36:07: #2 number of paired peaks: 346 WARNING @ Tue, 30 Jun 2020 03:36:07: Fewer paired peaks (346) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 346 pairs to build model! INFO @ Tue, 30 Jun 2020 03:36:07: start model_add_line... INFO @ Tue, 30 Jun 2020 03:36:07: start X-correlation... INFO @ Tue, 30 Jun 2020 03:36:07: end of X-cor INFO @ Tue, 30 Jun 2020 03:36:07: #2 finished! INFO @ Tue, 30 Jun 2020 03:36:07: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:36:07: #2 alternative fragment length(s) may be 0,42,593,597 bps INFO @ Tue, 30 Jun 2020 03:36:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5436051/SRX5436051.20_model.r WARNING @ Tue, 30 Jun 2020 03:36:07: #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 03:36:07: #2 You may need to consider one of the other alternative d(s): 0,42,593,597 WARNING @ Tue, 30 Jun 2020 03:36:07: #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 03:36:07: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:36:07: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 /var/spool/uge/it006/job_scripts/6529960: line 293: 19927 Terminated MACS $i /var/spool/uge/it006/job_scripts/6529960: line 293: 20169 Terminated MACS $i /var/spool/uge/it006/job_scripts/6529960: line 293: 20262 Terminated MACS $i ls: cannot access SRX5436051.05.bed: No such file or directory mv: cannot stat ‘SRX5436051.05.bed’: No such file or directory mv: cannot stat ‘SRX5436051.05.bb’: No such file or directory ls: cannot access SRX5436051.10.bed: No such file or directory mv: cannot stat ‘SRX5436051.10.bed’: No such file or directory mv: cannot stat ‘SRX5436051.10.bb’: No such file or directory ls: cannot access SRX5436051.20.bed: No such file or directory mv: cannot stat ‘SRX5436051.20.bed’: No such file or directory mv: cannot stat ‘SRX5436051.20.bb’: No such file or directory