Job ID = 11170838 sra ファイルのダウンロード中... Completed: 1118561K bytes transferred in 88 seconds (103835K 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 42230977 spots for /home/okishinya/chipatlas/results/ce10/SRX3583338/SRR6493994.sra Written 42230977 spots for /home/okishinya/chipatlas/results/ce10/SRX3583338/SRR6493994.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: 00:14:54 42230977 reads; of these: 42230977 (100.00%) were unpaired; of these: 2932910 (6.94%) aligned 0 times 33979483 (80.46%) aligned exactly 1 time 5318584 (12.59%) aligned >1 times 93.06% overall alignment rate Time searching: 00:14:54 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] 8130416 / 39298067 = 0.2069 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 11:53:05: # Command line: callpeak -t SRX3583338.bam -f BAM -g ce -n SRX3583338.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3583338.10 # format = BAM # ChIP-seq file = ['SRX3583338.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 11:53:05: # Command line: callpeak -t SRX3583338.bam -f BAM -g ce -n SRX3583338.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3583338.05 # format = BAM # ChIP-seq file = ['SRX3583338.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 11:53:05: # Command line: callpeak -t SRX3583338.bam -f BAM -g ce -n SRX3583338.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3583338.20 # format = BAM # ChIP-seq file = ['SRX3583338.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 11:53:05: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:53:05: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:53:05: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:53:05: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:53:05: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:53:05: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:53:12: 1000000 INFO @ Sat, 08 Sep 2018 11:53:12: 1000000 INFO @ Sat, 08 Sep 2018 11:53:12: 1000000 INFO @ Sat, 08 Sep 2018 11:53:19: 2000000 INFO @ Sat, 08 Sep 2018 11:53:19: 2000000 INFO @ Sat, 08 Sep 2018 11:53:19: 2000000 INFO @ Sat, 08 Sep 2018 11:53:26: 3000000 INFO @ Sat, 08 Sep 2018 11:53:26: 3000000 INFO @ Sat, 08 Sep 2018 11:53:26: 3000000 INFO @ Sat, 08 Sep 2018 11:53:32: 4000000 INFO @ Sat, 08 Sep 2018 11:53:33: 4000000 INFO @ Sat, 08 Sep 2018 11:53:33: 4000000 INFO @ Sat, 08 Sep 2018 11:53:39: 5000000 INFO @ Sat, 08 Sep 2018 11:53:41: 5000000 INFO @ Sat, 08 Sep 2018 11:53:41: 5000000 INFO @ Sat, 08 Sep 2018 11:53:46: 6000000 INFO @ Sat, 08 Sep 2018 11:53:48: 6000000 INFO @ Sat, 08 Sep 2018 11:53:48: 6000000 INFO @ Sat, 08 Sep 2018 11:53:53: 7000000 INFO @ Sat, 08 Sep 2018 11:53:55: 7000000 INFO @ Sat, 08 Sep 2018 11:53:55: 7000000 INFO @ Sat, 08 Sep 2018 11:54:00: 8000000 INFO @ Sat, 08 Sep 2018 11:54:02: 8000000 INFO @ Sat, 08 Sep 2018 11:54:02: 8000000 INFO @ Sat, 08 Sep 2018 11:54:07: 9000000 INFO @ Sat, 08 Sep 2018 11:54:09: 9000000 INFO @ Sat, 08 Sep 2018 11:54:09: 9000000 INFO @ Sat, 08 Sep 2018 11:54:13: 10000000 INFO @ Sat, 08 Sep 2018 11:54:16: 10000000 INFO @ Sat, 08 Sep 2018 11:54:16: 10000000 INFO @ Sat, 08 Sep 2018 11:54:20: 11000000 INFO @ Sat, 08 Sep 2018 11:54:23: 11000000 INFO @ Sat, 08 Sep 2018 11:54:23: 11000000 INFO @ Sat, 08 Sep 2018 11:54:27: 12000000 INFO @ Sat, 08 Sep 2018 11:54:30: 12000000 INFO @ Sat, 08 Sep 2018 11:54:30: 12000000 INFO @ Sat, 08 Sep 2018 11:54:34: 13000000 INFO @ Sat, 08 Sep 2018 11:54:37: 13000000 INFO @ Sat, 08 Sep 2018 11:54:37: 13000000 INFO @ Sat, 08 Sep 2018 11:54:41: 14000000 INFO @ Sat, 08 Sep 2018 11:54:44: 14000000 INFO @ Sat, 08 Sep 2018 11:54:44: 14000000 INFO @ Sat, 08 Sep 2018 11:54:48: 15000000 INFO @ Sat, 08 Sep 2018 11:54:51: 15000000 INFO @ Sat, 08 Sep 2018 11:54:51: 15000000 INFO @ Sat, 08 Sep 2018 11:54:55: 16000000 INFO @ Sat, 08 Sep 2018 11:54:58: 16000000 INFO @ Sat, 08 Sep 2018 11:54:58: 16000000 INFO @ Sat, 08 Sep 2018 11:55:01: 17000000 INFO @ Sat, 08 Sep 2018 11:55:05: 17000000 INFO @ Sat, 08 Sep 2018 11:55:05: 17000000 INFO @ Sat, 08 Sep 2018 11:55:08: 18000000 INFO @ Sat, 08 Sep 2018 11:55:12: 18000000 INFO @ Sat, 08 Sep 2018 11:55:12: 18000000 INFO @ Sat, 08 Sep 2018 11:55:15: 19000000 INFO @ Sat, 08 Sep 2018 11:55:19: 19000000 INFO @ Sat, 08 Sep 2018 11:55:19: 19000000 INFO @ Sat, 08 Sep 2018 11:55:22: 20000000 INFO @ Sat, 08 Sep 2018 11:55:26: 20000000 INFO @ Sat, 08 Sep 2018 11:55:26: 20000000 INFO @ Sat, 08 Sep 2018 11:55:29: 21000000 INFO @ Sat, 08 Sep 2018 11:55:33: 21000000 INFO @ Sat, 08 Sep 2018 11:55:33: 21000000 INFO @ Sat, 08 Sep 2018 11:55:36: 22000000 INFO @ Sat, 08 Sep 2018 11:55:40: 22000000 INFO @ Sat, 08 Sep 2018 11:55:41: 22000000 INFO @ Sat, 08 Sep 2018 11:55:42: 23000000 INFO @ Sat, 08 Sep 2018 11:55:48: 23000000 INFO @ Sat, 08 Sep 2018 11:55:48: 23000000 INFO @ Sat, 08 Sep 2018 11:55:49: 24000000 INFO @ Sat, 08 Sep 2018 11:55:55: 24000000 INFO @ Sat, 08 Sep 2018 11:55:55: 24000000 INFO @ Sat, 08 Sep 2018 11:55:56: 25000000 INFO @ Sat, 08 Sep 2018 11:56:02: 25000000 INFO @ Sat, 08 Sep 2018 11:56:02: 25000000 INFO @ Sat, 08 Sep 2018 11:56:03: 26000000 INFO @ Sat, 08 Sep 2018 11:56:09: 26000000 INFO @ Sat, 08 Sep 2018 11:56:09: 26000000 INFO @ Sat, 08 Sep 2018 11:56:10: 27000000 INFO @ Sat, 08 Sep 2018 11:56:16: 27000000 INFO @ Sat, 08 Sep 2018 11:56:16: 27000000 INFO @ Sat, 08 Sep 2018 11:56:17: 28000000 INFO @ Sat, 08 Sep 2018 11:56:23: 28000000 INFO @ Sat, 08 Sep 2018 11:56:23: 28000000 INFO @ Sat, 08 Sep 2018 11:56:24: 29000000 INFO @ Sat, 08 Sep 2018 11:56:31: 29000000 INFO @ Sat, 08 Sep 2018 11:56:31: 29000000 INFO @ Sat, 08 Sep 2018 11:56:32: 30000000 INFO @ Sat, 08 Sep 2018 11:56:38: 30000000 INFO @ Sat, 08 Sep 2018 11:56:38: 30000000 INFO @ Sat, 08 Sep 2018 11:56:39: 31000000 INFO @ Sat, 08 Sep 2018 11:56:40: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:56:40: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:56:40: #1 total tags in treatment: 31167651 INFO @ Sat, 08 Sep 2018 11:56:40: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:56:40: #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 11:56:41: #1 tags after filtering in treatment: 31167651 INFO @ Sat, 08 Sep 2018 11:56:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:56:41: #1 finished! INFO @ Sat, 08 Sep 2018 11:56:41: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:56:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:56:43: #2 number of paired peaks: 34 WARNING @ Sat, 08 Sep 2018 11:56:43: Too few paired peaks (34) 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 11:56:43: Process for pairing-model is terminated! cat: SRX3583338.05_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): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3583338.05_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 `SRX3583338.05_*.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 `SRX3583338.05_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 11:56:45: 31000000 INFO @ Sat, 08 Sep 2018 11:56:45: 31000000 INFO @ Sat, 08 Sep 2018 11:56:46: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:56:46: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:56:46: #1 total tags in treatment: 31167651 INFO @ Sat, 08 Sep 2018 11:56:46: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:56:46: #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 11:56:47: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:56:47: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:56:47: #1 total tags in treatment: 31167651 INFO @ Sat, 08 Sep 2018 11:56:47: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:56:47: #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 11:56:47: #1 tags after filtering in treatment: 31167651 INFO @ Sat, 08 Sep 2018 11:56:47: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:56:47: #1 finished! INFO @ Sat, 08 Sep 2018 11:56:47: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:56:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:56:47: #1 tags after filtering in treatment: 31167651 INFO @ Sat, 08 Sep 2018 11:56:47: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:56:47: #1 finished! INFO @ Sat, 08 Sep 2018 11:56:47: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:56:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:56:49: #2 number of paired peaks: 34 WARNING @ Sat, 08 Sep 2018 11:56:49: Too few paired peaks (34) 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 11:56:49: Process for pairing-model is terminated! cat: SRX3583338.20_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): 8 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3583338.20_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 `SRX3583338.20_*.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 `SRX3583338.20_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 11:56:50: #2 number of paired peaks: 34 WARNING @ Sat, 08 Sep 2018 11:56:50: Too few paired peaks (34) 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 11:56:50: Process for pairing-model is terminated! cat: SRX3583338.10_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 `SRX3583338.10_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 `SRX3583338.10_*.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 `SRX3583338.10_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。