Job ID = 11170844 sra ファイルのダウンロード中... Completed: 1052545K bytes transferred in 63 seconds (136413K 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 39684890 spots for /home/okishinya/chipatlas/results/ce10/SRX3583344/SRR6494000.sra Written 39684890 spots for /home/okishinya/chipatlas/results/ce10/SRX3583344/SRR6494000.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: 00:00:01 Multiseed full-index search: 00:15:11 39684890 reads; of these: 39684890 (100.00%) were unpaired; of these: 1804986 (4.55%) aligned 0 times 31738336 (79.98%) aligned exactly 1 time 6141568 (15.48%) aligned >1 times 95.45% overall alignment rate Time searching: 00:15:12 Overall time: 00:15:12 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 16 files... [bam_rmdupse_core] 7303539 / 37879904 = 0.1928 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 11:52:32: # Command line: callpeak -t SRX3583344.bam -f BAM -g ce -n SRX3583344.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3583344.05 # format = BAM # ChIP-seq file = ['SRX3583344.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 11:52:32: # Command line: callpeak -t SRX3583344.bam -f BAM -g ce -n SRX3583344.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3583344.20 # format = BAM # ChIP-seq file = ['SRX3583344.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 11:52:32: # Command line: callpeak -t SRX3583344.bam -f BAM -g ce -n SRX3583344.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3583344.10 # format = BAM # ChIP-seq file = ['SRX3583344.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 11:52:32: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:52:32: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:52:32: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:52:32: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:52:32: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:52:32: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:52:39: 1000000 INFO @ Sat, 08 Sep 2018 11:52:39: 1000000 INFO @ Sat, 08 Sep 2018 11:52:39: 1000000 INFO @ Sat, 08 Sep 2018 11:52:45: 2000000 INFO @ Sat, 08 Sep 2018 11:52:45: 2000000 INFO @ Sat, 08 Sep 2018 11:52:46: 2000000 INFO @ Sat, 08 Sep 2018 11:52:52: 3000000 INFO @ Sat, 08 Sep 2018 11:52:52: 3000000 INFO @ Sat, 08 Sep 2018 11:52:52: 3000000 INFO @ Sat, 08 Sep 2018 11:52:58: 4000000 INFO @ Sat, 08 Sep 2018 11:52:58: 4000000 INFO @ Sat, 08 Sep 2018 11:52:59: 4000000 INFO @ Sat, 08 Sep 2018 11:53:05: 5000000 INFO @ Sat, 08 Sep 2018 11:53:05: 5000000 INFO @ Sat, 08 Sep 2018 11:53:05: 5000000 INFO @ Sat, 08 Sep 2018 11:53:11: 6000000 INFO @ Sat, 08 Sep 2018 11:53:11: 6000000 INFO @ Sat, 08 Sep 2018 11:53:11: 6000000 INFO @ Sat, 08 Sep 2018 11:53:17: 7000000 INFO @ Sat, 08 Sep 2018 11:53:18: 7000000 INFO @ Sat, 08 Sep 2018 11:53:18: 7000000 INFO @ Sat, 08 Sep 2018 11:53:24: 8000000 INFO @ Sat, 08 Sep 2018 11:53:24: 8000000 INFO @ Sat, 08 Sep 2018 11:53:24: 8000000 INFO @ Sat, 08 Sep 2018 11:53:30: 9000000 INFO @ Sat, 08 Sep 2018 11:53:31: 9000000 INFO @ Sat, 08 Sep 2018 11:53:31: 9000000 INFO @ Sat, 08 Sep 2018 11:53:36: 10000000 INFO @ Sat, 08 Sep 2018 11:53:37: 10000000 INFO @ Sat, 08 Sep 2018 11:53:37: 10000000 INFO @ Sat, 08 Sep 2018 11:53:43: 11000000 INFO @ Sat, 08 Sep 2018 11:53:43: 11000000 INFO @ Sat, 08 Sep 2018 11:53:43: 11000000 INFO @ Sat, 08 Sep 2018 11:53:49: 12000000 INFO @ Sat, 08 Sep 2018 11:53:50: 12000000 INFO @ Sat, 08 Sep 2018 11:53:50: 12000000 INFO @ Sat, 08 Sep 2018 11:53:55: 13000000 INFO @ Sat, 08 Sep 2018 11:53:56: 13000000 INFO @ Sat, 08 Sep 2018 11:53:56: 13000000 INFO @ Sat, 08 Sep 2018 11:54:02: 14000000 INFO @ Sat, 08 Sep 2018 11:54:02: 14000000 INFO @ Sat, 08 Sep 2018 11:54:03: 14000000 INFO @ Sat, 08 Sep 2018 11:54:08: 15000000 INFO @ Sat, 08 Sep 2018 11:54:09: 15000000 INFO @ Sat, 08 Sep 2018 11:54:09: 15000000 INFO @ Sat, 08 Sep 2018 11:54:14: 16000000 INFO @ Sat, 08 Sep 2018 11:54:15: 16000000 INFO @ Sat, 08 Sep 2018 11:54:15: 16000000 INFO @ Sat, 08 Sep 2018 11:54:20: 17000000 INFO @ Sat, 08 Sep 2018 11:54:22: 17000000 INFO @ Sat, 08 Sep 2018 11:54:22: 17000000 INFO @ Sat, 08 Sep 2018 11:54:27: 18000000 INFO @ Sat, 08 Sep 2018 11:54:28: 18000000 INFO @ Sat, 08 Sep 2018 11:54:28: 18000000 INFO @ Sat, 08 Sep 2018 11:54:33: 19000000 INFO @ Sat, 08 Sep 2018 11:54:34: 19000000 INFO @ Sat, 08 Sep 2018 11:54:35: 19000000 INFO @ Sat, 08 Sep 2018 11:54:39: 20000000 INFO @ Sat, 08 Sep 2018 11:54:41: 20000000 INFO @ Sat, 08 Sep 2018 11:54:41: 20000000 INFO @ Sat, 08 Sep 2018 11:54:45: 21000000 INFO @ Sat, 08 Sep 2018 11:54:47: 21000000 INFO @ Sat, 08 Sep 2018 11:54:48: 21000000 INFO @ Sat, 08 Sep 2018 11:54:52: 22000000 INFO @ Sat, 08 Sep 2018 11:54:54: 22000000 INFO @ Sat, 08 Sep 2018 11:54:54: 22000000 INFO @ Sat, 08 Sep 2018 11:54:58: 23000000 INFO @ Sat, 08 Sep 2018 11:55:00: 23000000 INFO @ Sat, 08 Sep 2018 11:55:01: 23000000 INFO @ Sat, 08 Sep 2018 11:55:04: 24000000 INFO @ Sat, 08 Sep 2018 11:55:07: 24000000 INFO @ Sat, 08 Sep 2018 11:55:08: 24000000 INFO @ Sat, 08 Sep 2018 11:55:10: 25000000 INFO @ Sat, 08 Sep 2018 11:55:13: 25000000 INFO @ Sat, 08 Sep 2018 11:55:15: 25000000 INFO @ Sat, 08 Sep 2018 11:55:17: 26000000 INFO @ Sat, 08 Sep 2018 11:55:20: 26000000 INFO @ Sat, 08 Sep 2018 11:55:22: 26000000 INFO @ Sat, 08 Sep 2018 11:55:23: 27000000 INFO @ Sat, 08 Sep 2018 11:55:27: 27000000 INFO @ Sat, 08 Sep 2018 11:55:29: 27000000 INFO @ Sat, 08 Sep 2018 11:55:29: 28000000 INFO @ Sat, 08 Sep 2018 11:55:33: 28000000 INFO @ Sat, 08 Sep 2018 11:55:35: 29000000 INFO @ Sat, 08 Sep 2018 11:55:36: 28000000 INFO @ Sat, 08 Sep 2018 11:55:40: 29000000 INFO @ Sat, 08 Sep 2018 11:55:41: 30000000 INFO @ Sat, 08 Sep 2018 11:55:43: 29000000 INFO @ Sat, 08 Sep 2018 11:55:45: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:55:45: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:55:45: #1 total tags in treatment: 30576365 INFO @ Sat, 08 Sep 2018 11:55:45: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:55:45: #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: 30576365 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 11:55:47: 30000000 INFO @ Sat, 08 Sep 2018 11:55:48: #2 number of paired peaks: 59 WARNING @ Sat, 08 Sep 2018 11:55:48: Too few paired peaks (59) 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: SRX3583344.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3583344.20_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 `SRX3583344.20_*.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 `SRX3583344.20_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 11:55:49: 30000000 INFO @ Sat, 08 Sep 2018 11:55:51: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:55:51: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:55:51: #1 total tags in treatment: 30576365 INFO @ Sat, 08 Sep 2018 11:55:51: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:55:51: #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 11:55:51: #1 tags after filtering in treatment: 30576365 INFO @ Sat, 08 Sep 2018 11:55:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:55:51: #1 finished! INFO @ Sat, 08 Sep 2018 11:55:51: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:55:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:55:53: #2 number of paired peaks: 59 WARNING @ Sat, 08 Sep 2018 11:55:53: Too few paired peaks (59) 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 11:55:53: Process for pairing-model is terminated! cat: SRX3583344.05_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 `SRX3583344.05_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 `SRX3583344.05_*.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 `SRX3583344.05_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 11:55:53: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:55:53: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:55:53: #1 total tags in treatment: 30576365 INFO @ Sat, 08 Sep 2018 11:55:53: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:55:53: #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 11:55:54: #1 tags after filtering in treatment: 30576365 INFO @ Sat, 08 Sep 2018 11:55:54: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:55:54: #1 finished! INFO @ Sat, 08 Sep 2018 11:55:54: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:55:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:55:56: #2 number of paired peaks: 59 WARNING @ Sat, 08 Sep 2018 11:55:56: Too few paired peaks (59) 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 11:55:56: Process for pairing-model is terminated! cat: SRX3583344.10_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 `SRX3583344.10_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 `SRX3583344.10_*.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 `SRX3583344.10_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。