Job ID = 11170845 sra ファイルのダウンロード中... Completed: 1143867K bytes transferred in 83 seconds (112646K 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 43168615 spots for /home/okishinya/chipatlas/results/ce10/SRX3583345/SRR6494001.sra Written 43168615 spots for /home/okishinya/chipatlas/results/ce10/SRX3583345/SRR6494001.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: 00:16:23 43168615 reads; of these: 43168615 (100.00%) were unpaired; of these: 1738352 (4.03%) aligned 0 times 34749032 (80.50%) aligned exactly 1 time 6681231 (15.48%) aligned >1 times 95.97% overall alignment rate Time searching: 00:16:23 Overall time: 00:16:23 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] 10603750 / 41430263 = 0.2559 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 11:54:45: # Command line: callpeak -t SRX3583345.bam -f BAM -g ce -n SRX3583345.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3583345.20 # format = BAM # ChIP-seq file = ['SRX3583345.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 11:54:45: # Command line: callpeak -t SRX3583345.bam -f BAM -g ce -n SRX3583345.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3583345.10 # format = BAM # ChIP-seq file = ['SRX3583345.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 11:54:45: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:54:45: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:54:45: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:54:45: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:54:45: # Command line: callpeak -t SRX3583345.bam -f BAM -g ce -n SRX3583345.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3583345.05 # format = BAM # ChIP-seq file = ['SRX3583345.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 11:54:45: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:54:45: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:54:53: 1000000 INFO @ Sat, 08 Sep 2018 11:54:53: 1000000 INFO @ Sat, 08 Sep 2018 11:54:53: 1000000 INFO @ Sat, 08 Sep 2018 11:55:00: 2000000 INFO @ Sat, 08 Sep 2018 11:55:00: 2000000 INFO @ Sat, 08 Sep 2018 11:55:00: 2000000 INFO @ Sat, 08 Sep 2018 11:55:07: 3000000 INFO @ Sat, 08 Sep 2018 11:55:08: 3000000 INFO @ Sat, 08 Sep 2018 11:55:08: 3000000 INFO @ Sat, 08 Sep 2018 11:55:14: 4000000 INFO @ Sat, 08 Sep 2018 11:55:15: 4000000 INFO @ Sat, 08 Sep 2018 11:55:15: 4000000 INFO @ Sat, 08 Sep 2018 11:55:22: 5000000 INFO @ Sat, 08 Sep 2018 11:55:23: 5000000 INFO @ Sat, 08 Sep 2018 11:55:23: 5000000 INFO @ Sat, 08 Sep 2018 11:55:29: 6000000 INFO @ Sat, 08 Sep 2018 11:55:30: 6000000 INFO @ Sat, 08 Sep 2018 11:55:30: 6000000 INFO @ Sat, 08 Sep 2018 11:55:36: 7000000 INFO @ Sat, 08 Sep 2018 11:55:37: 7000000 INFO @ Sat, 08 Sep 2018 11:55:38: 7000000 INFO @ Sat, 08 Sep 2018 11:55:43: 8000000 INFO @ Sat, 08 Sep 2018 11:55:45: 8000000 INFO @ Sat, 08 Sep 2018 11:55:45: 8000000 INFO @ Sat, 08 Sep 2018 11:55:50: 9000000 INFO @ Sat, 08 Sep 2018 11:55:52: 9000000 INFO @ Sat, 08 Sep 2018 11:55:52: 9000000 INFO @ Sat, 08 Sep 2018 11:55:57: 10000000 INFO @ Sat, 08 Sep 2018 11:56:00: 10000000 INFO @ Sat, 08 Sep 2018 11:56:00: 10000000 INFO @ Sat, 08 Sep 2018 11:56:04: 11000000 INFO @ Sat, 08 Sep 2018 11:56:07: 11000000 INFO @ Sat, 08 Sep 2018 11:56:07: 11000000 INFO @ Sat, 08 Sep 2018 11:56:12: 12000000 INFO @ Sat, 08 Sep 2018 11:56:15: 12000000 INFO @ Sat, 08 Sep 2018 11:56:15: 12000000 INFO @ Sat, 08 Sep 2018 11:56:19: 13000000 INFO @ Sat, 08 Sep 2018 11:56:22: 13000000 INFO @ Sat, 08 Sep 2018 11:56:22: 13000000 INFO @ Sat, 08 Sep 2018 11:56:26: 14000000 INFO @ Sat, 08 Sep 2018 11:56:29: 14000000 INFO @ Sat, 08 Sep 2018 11:56:30: 14000000 INFO @ Sat, 08 Sep 2018 11:56:34: 15000000 INFO @ Sat, 08 Sep 2018 11:56:37: 15000000 INFO @ Sat, 08 Sep 2018 11:56:37: 15000000 INFO @ Sat, 08 Sep 2018 11:56:42: 16000000 INFO @ Sat, 08 Sep 2018 11:56:44: 16000000 INFO @ Sat, 08 Sep 2018 11:56:44: 16000000 INFO @ Sat, 08 Sep 2018 11:56:49: 17000000 INFO @ Sat, 08 Sep 2018 11:56:51: 17000000 INFO @ Sat, 08 Sep 2018 11:56:52: 17000000 INFO @ Sat, 08 Sep 2018 11:56:57: 18000000 INFO @ Sat, 08 Sep 2018 11:56:58: 18000000 INFO @ Sat, 08 Sep 2018 11:56:59: 18000000 INFO @ Sat, 08 Sep 2018 11:57:04: 19000000 INFO @ Sat, 08 Sep 2018 11:57:06: 19000000 INFO @ Sat, 08 Sep 2018 11:57:07: 19000000 INFO @ Sat, 08 Sep 2018 11:57:12: 20000000 INFO @ Sat, 08 Sep 2018 11:57:13: 20000000 INFO @ Sat, 08 Sep 2018 11:57:15: 20000000 INFO @ Sat, 08 Sep 2018 11:57:20: 21000000 INFO @ Sat, 08 Sep 2018 11:57:20: 21000000 INFO @ Sat, 08 Sep 2018 11:57:22: 21000000 INFO @ Sat, 08 Sep 2018 11:57:27: 22000000 INFO @ Sat, 08 Sep 2018 11:57:27: 22000000 INFO @ Sat, 08 Sep 2018 11:57:30: 22000000 INFO @ Sat, 08 Sep 2018 11:57:34: 23000000 INFO @ Sat, 08 Sep 2018 11:57:35: 23000000 INFO @ Sat, 08 Sep 2018 11:57:37: 23000000 INFO @ Sat, 08 Sep 2018 11:57:41: 24000000 INFO @ Sat, 08 Sep 2018 11:57:42: 24000000 INFO @ Sat, 08 Sep 2018 11:57:45: 24000000 INFO @ Sat, 08 Sep 2018 11:57:48: 25000000 INFO @ Sat, 08 Sep 2018 11:57:50: 25000000 INFO @ Sat, 08 Sep 2018 11:57:52: 25000000 INFO @ Sat, 08 Sep 2018 11:57:56: 26000000 INFO @ Sat, 08 Sep 2018 11:57:58: 26000000 INFO @ Sat, 08 Sep 2018 11:58:00: 26000000 INFO @ Sat, 08 Sep 2018 11:58:03: 27000000 INFO @ Sat, 08 Sep 2018 11:58:05: 27000000 INFO @ Sat, 08 Sep 2018 11:58:07: 27000000 INFO @ Sat, 08 Sep 2018 11:58:10: 28000000 INFO @ Sat, 08 Sep 2018 11:58:13: 28000000 INFO @ Sat, 08 Sep 2018 11:58:15: 28000000 INFO @ Sat, 08 Sep 2018 11:58:17: 29000000 INFO @ Sat, 08 Sep 2018 11:58:20: 29000000 INFO @ Sat, 08 Sep 2018 11:58:23: 29000000 INFO @ Sat, 08 Sep 2018 11:58:24: 30000000 INFO @ Sat, 08 Sep 2018 11:58:28: 30000000 INFO @ Sat, 08 Sep 2018 11:58:30: 30000000 INFO @ Sat, 08 Sep 2018 11:58:30: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:58:30: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:58:30: #1 total tags in treatment: 30826513 INFO @ Sat, 08 Sep 2018 11:58:30: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:58:30: #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 11:58:31: #1 tags after filtering in treatment: 30826513 INFO @ Sat, 08 Sep 2018 11:58:31: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:58:31: #1 finished! INFO @ Sat, 08 Sep 2018 11:58:31: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:58:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:58:33: #2 number of paired peaks: 58 WARNING @ Sat, 08 Sep 2018 11:58:33: Too few paired peaks (58) 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 11:58:33: Process for pairing-model is terminated! cat: SRX3583345.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3583345.20_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 `SRX3583345.20_*.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 `SRX3583345.20_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 11:58:34: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:58:34: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:58:34: #1 total tags in treatment: 30826513 INFO @ Sat, 08 Sep 2018 11:58:34: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:58:34: #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 11:58:35: #1 tags after filtering in treatment: 30826513 INFO @ Sat, 08 Sep 2018 11:58:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:58:35: #1 finished! INFO @ Sat, 08 Sep 2018 11:58:35: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:58:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:58:36: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:58:36: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:58:36: #1 total tags in treatment: 30826513 INFO @ Sat, 08 Sep 2018 11:58:36: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:58:36: #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 11:58:37: #1 tags after filtering in treatment: 30826513 INFO @ Sat, 08 Sep 2018 11:58:37: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:58:37: #1 finished! INFO @ Sat, 08 Sep 2018 11:58:37: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:58:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:58:37: #2 number of paired peaks: 58 WARNING @ Sat, 08 Sep 2018 11:58:37: Too few paired peaks (58) 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 11:58:37: Process for pairing-model is terminated! cat: SRX3583345.10_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): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3583345.10_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 `SRX3583345.10_*.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 `SRX3583345.10_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 INFO @ Sat, 08 Sep 2018 11:58:39: #2 number of paired peaks: 58 WARNING @ Sat, 08 Sep 2018 11:58:39: Too few paired peaks (58) 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 11:58:39: Process for pairing-model is terminated! cat: SRX3583345.05_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): 15 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3583345.05_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 `SRX3583345.05_*.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 `SRX3583345.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。