Job ID = 11170839 sra ファイルのダウンロード中... Completed: 1098776K bytes transferred in 46 seconds (194768K bits/sec), in 1 file. sra ファイルのダウンロードが完了しました。 Read layout: SINGLE fastq に変換中... Read 41524876 spots for /home/okishinya/chipatlas/results/ce10/SRX3583339/SRR6493995.sra Written 41524876 spots for /home/okishinya/chipatlas/results/ce10/SRX3583339/SRR6493995.sra rm: cannot remove `[DSE]RX*': そのようなファイルやディレクトリはありません rm: cannot remove `[DSE]RR*.fastq': そのようなファイルやディレクトリはありません 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: 00:14:55 41524876 reads; of these: 41524876 (100.00%) were unpaired; of these: 1293631 (3.12%) aligned 0 times 34819238 (83.85%) aligned exactly 1 time 5412007 (13.03%) aligned >1 times 96.88% overall alignment rate Time searching: 00:14:55 Overall time: 00:14:55 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 20 files... [bam_rmdupse_core] 8671694 / 40231245 = 0.2155 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Sat, 08 Sep 2018 11:52:05: # Command line: callpeak -t SRX3583339.bam -f BAM -g ce -n SRX3583339.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3583339.05 # format = BAM # ChIP-seq file = ['SRX3583339.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 @ Sat, 08 Sep 2018 11:52:05: # Command line: callpeak -t SRX3583339.bam -f BAM -g ce -n SRX3583339.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3583339.10 # format = BAM # ChIP-seq file = ['SRX3583339.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 @ Sat, 08 Sep 2018 11:52:05: # Command line: callpeak -t SRX3583339.bam -f BAM -g ce -n SRX3583339.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3583339.20 # format = BAM # ChIP-seq file = ['SRX3583339.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 @ Sat, 08 Sep 2018 11:52:05: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:52:05: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:52:05: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:52:05: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:52:05: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:52:05: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:52:11: 1000000 INFO @ Sat, 08 Sep 2018 11:52:12: 1000000 INFO @ Sat, 08 Sep 2018 11:52:12: 1000000 INFO @ Sat, 08 Sep 2018 11:52:18: 2000000 INFO @ Sat, 08 Sep 2018 11:52:18: 2000000 INFO @ Sat, 08 Sep 2018 11:52:19: 2000000 INFO @ Sat, 08 Sep 2018 11:52:25: 3000000 INFO @ Sat, 08 Sep 2018 11:52:25: 3000000 INFO @ Sat, 08 Sep 2018 11:52:26: 3000000 INFO @ Sat, 08 Sep 2018 11:52:31: 4000000 INFO @ Sat, 08 Sep 2018 11:52:32: 4000000 INFO @ Sat, 08 Sep 2018 11:52:33: 4000000 INFO @ Sat, 08 Sep 2018 11:52:38: 5000000 INFO @ Sat, 08 Sep 2018 11:52:40: 5000000 INFO @ Sat, 08 Sep 2018 11:52:40: 5000000 INFO @ Sat, 08 Sep 2018 11:52:45: 6000000 INFO @ Sat, 08 Sep 2018 11:52:47: 6000000 INFO @ Sat, 08 Sep 2018 11:52:47: 6000000 INFO @ Sat, 08 Sep 2018 11:52:52: 7000000 INFO @ Sat, 08 Sep 2018 11:52:54: 7000000 INFO @ Sat, 08 Sep 2018 11:52:54: 7000000 INFO @ Sat, 08 Sep 2018 11:52:59: 8000000 INFO @ Sat, 08 Sep 2018 11:53:00: 8000000 INFO @ Sat, 08 Sep 2018 11:53:02: 8000000 INFO @ Sat, 08 Sep 2018 11:53:06: 9000000 INFO @ Sat, 08 Sep 2018 11:53:07: 9000000 INFO @ Sat, 08 Sep 2018 11:53:09: 9000000 INFO @ Sat, 08 Sep 2018 11:53:13: 10000000 INFO @ Sat, 08 Sep 2018 11:53:14: 10000000 INFO @ Sat, 08 Sep 2018 11:53:16: 10000000 INFO @ Sat, 08 Sep 2018 11:53:19: 11000000 INFO @ Sat, 08 Sep 2018 11:53:21: 11000000 INFO @ Sat, 08 Sep 2018 11:53:23: 11000000 INFO @ Sat, 08 Sep 2018 11:53:26: 12000000 INFO @ Sat, 08 Sep 2018 11:53:28: 12000000 INFO @ Sat, 08 Sep 2018 11:53:30: 12000000 INFO @ Sat, 08 Sep 2018 11:53:33: 13000000 INFO @ Sat, 08 Sep 2018 11:53:35: 13000000 INFO @ Sat, 08 Sep 2018 11:53:37: 13000000 INFO @ Sat, 08 Sep 2018 11:53:40: 14000000 INFO @ Sat, 08 Sep 2018 11:53:42: 14000000 INFO @ Sat, 08 Sep 2018 11:53:43: 14000000 INFO @ Sat, 08 Sep 2018 11:53:47: 15000000 INFO @ Sat, 08 Sep 2018 11:53:50: 15000000 INFO @ Sat, 08 Sep 2018 11:53:50: 15000000 INFO @ Sat, 08 Sep 2018 11:53:54: 16000000 INFO @ Sat, 08 Sep 2018 11:53:57: 16000000 INFO @ Sat, 08 Sep 2018 11:53:57: 16000000 INFO @ Sat, 08 Sep 2018 11:54:01: 17000000 INFO @ Sat, 08 Sep 2018 11:54:04: 17000000 INFO @ Sat, 08 Sep 2018 11:54:04: 17000000 INFO @ Sat, 08 Sep 2018 11:54:07: 18000000 INFO @ Sat, 08 Sep 2018 11:54:10: 18000000 INFO @ Sat, 08 Sep 2018 11:54:12: 18000000 INFO @ Sat, 08 Sep 2018 11:54:14: 19000000 INFO @ Sat, 08 Sep 2018 11:54:17: 19000000 INFO @ Sat, 08 Sep 2018 11:54:19: 19000000 INFO @ Sat, 08 Sep 2018 11:54:21: 20000000 INFO @ Sat, 08 Sep 2018 11:54:24: 20000000 INFO @ Sat, 08 Sep 2018 11:54:26: 20000000 INFO @ Sat, 08 Sep 2018 11:54:28: 21000000 INFO @ Sat, 08 Sep 2018 11:54:30: 21000000 INFO @ Sat, 08 Sep 2018 11:54:33: 21000000 INFO @ Sat, 08 Sep 2018 11:54:35: 22000000 INFO @ Sat, 08 Sep 2018 11:54:37: 22000000 INFO @ Sat, 08 Sep 2018 11:54:41: 22000000 INFO @ Sat, 08 Sep 2018 11:54:42: 23000000 INFO @ Sat, 08 Sep 2018 11:54:44: 23000000 INFO @ Sat, 08 Sep 2018 11:54:47: 23000000 INFO @ Sat, 08 Sep 2018 11:54:48: 24000000 INFO @ Sat, 08 Sep 2018 11:54:52: 24000000 INFO @ Sat, 08 Sep 2018 11:54:54: 24000000 INFO @ Sat, 08 Sep 2018 11:54:55: 25000000 INFO @ Sat, 08 Sep 2018 11:54:59: 25000000 INFO @ Sat, 08 Sep 2018 11:55:01: 25000000 INFO @ Sat, 08 Sep 2018 11:55:02: 26000000 INFO @ Sat, 08 Sep 2018 11:55:06: 26000000 INFO @ Sat, 08 Sep 2018 11:55:08: 26000000 INFO @ Sat, 08 Sep 2018 11:55:09: 27000000 INFO @ Sat, 08 Sep 2018 11:55:13: 27000000 INFO @ Sat, 08 Sep 2018 11:55:14: 27000000 INFO @ Sat, 08 Sep 2018 11:55:16: 28000000 INFO @ Sat, 08 Sep 2018 11:55:20: 28000000 INFO @ Sat, 08 Sep 2018 11:55:21: 28000000 INFO @ Sat, 08 Sep 2018 11:55:22: 29000000 INFO @ Sat, 08 Sep 2018 11:55:28: 29000000 INFO @ Sat, 08 Sep 2018 11:55:28: 29000000 INFO @ Sat, 08 Sep 2018 11:55:29: 30000000 INFO @ Sat, 08 Sep 2018 11:55:35: 30000000 INFO @ Sat, 08 Sep 2018 11:55:35: 30000000 INFO @ Sat, 08 Sep 2018 11:55:36: 31000000 INFO @ Sat, 08 Sep 2018 11:55:40: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:55:40: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:55:40: #1 total tags in treatment: 31559551 INFO @ Sat, 08 Sep 2018 11:55:40: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:55:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Sep 2018 11:55:41: #1 tags after filtering in treatment: 31559551 INFO @ Sat, 08 Sep 2018 11:55:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:55:41: #1 finished! INFO @ Sat, 08 Sep 2018 11:55:41: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:55:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:55:42: 31000000 INFO @ Sat, 08 Sep 2018 11:55:42: 31000000 INFO @ Sat, 08 Sep 2018 11:55:43: #2 number of paired peaks: 39 WARNING @ Sat, 08 Sep 2018 11:55:43: Too few paired peaks (39) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 08 Sep 2018 11:55:43: Process for pairing-model is terminated! cat: SRX3583339.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3583339.05_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3583339.05_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3583339.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Sat, 08 Sep 2018 11:55:46: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:55:46: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:55:46: #1 total tags in treatment: 31559551 INFO @ Sat, 08 Sep 2018 11:55:46: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:55:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Sep 2018 11:55:46: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:55:46: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:55:46: #1 total tags in treatment: 31559551 INFO @ Sat, 08 Sep 2018 11:55:46: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:55:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Sep 2018 11:55:46: #1 tags after filtering in treatment: 31559551 INFO @ Sat, 08 Sep 2018 11:55:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:55:46: #1 finished! INFO @ Sat, 08 Sep 2018 11:55:46: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:55:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:55:46: #1 tags after filtering in treatment: 31559551 INFO @ Sat, 08 Sep 2018 11:55:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:55:46: #1 finished! INFO @ Sat, 08 Sep 2018 11:55:46: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:55:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:55:48: #2 number of paired peaks: 39 WARNING @ Sat, 08 Sep 2018 11:55:48: Too few paired peaks (39) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 08 Sep 2018 11:55:48: Process for pairing-model is terminated! cat: SRX3583339.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3583339.20_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3583339.20_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3583339.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Sat, 08 Sep 2018 11:55:48: #2 number of paired peaks: 39 WARNING @ Sat, 08 Sep 2018 11:55:48: Too few paired peaks (39) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 08 Sep 2018 11:55:48: Process for pairing-model is terminated! cat: SRX3583339.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3583339.10_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3583339.10_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3583339.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。