Job ID = 11170808 sra ファイルのダウンロード中... Completed: 1379001K bytes transferred in 101 seconds (110781K 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 47036427 spots for /home/okishinya/chipatlas/results/ce10/SRX2965733/SRR5766318.sra Written 47036427 spots for /home/okishinya/chipatlas/results/ce10/SRX2965733/SRR5766318.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: 00:19:27 47036427 reads; of these: 47036427 (100.00%) were unpaired; of these: 4272293 (9.08%) aligned 0 times 35549888 (75.58%) aligned exactly 1 time 7214246 (15.34%) aligned >1 times 90.92% overall alignment rate Time searching: 00:19:27 Overall time: 00:19:27 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] 9432578 / 42764134 = 0.2206 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 12:00:31: # Command line: callpeak -t SRX2965733.bam -f BAM -g ce -n SRX2965733.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2965733.10 # format = BAM # ChIP-seq file = ['SRX2965733.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 12:00:31: # Command line: callpeak -t SRX2965733.bam -f BAM -g ce -n SRX2965733.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2965733.05 # format = BAM # ChIP-seq file = ['SRX2965733.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 12:00:31: # Command line: callpeak -t SRX2965733.bam -f BAM -g ce -n SRX2965733.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2965733.20 # format = BAM # ChIP-seq file = ['SRX2965733.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 12:00:31: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:00:31: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:00:31: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:00:31: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:00:31: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:00:31: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:00:39: 1000000 INFO @ Sat, 08 Sep 2018 12:00:41: 1000000 INFO @ Sat, 08 Sep 2018 12:00:41: 1000000 INFO @ Sat, 08 Sep 2018 12:00:47: 2000000 INFO @ Sat, 08 Sep 2018 12:00:50: 2000000 INFO @ Sat, 08 Sep 2018 12:00:50: 2000000 INFO @ Sat, 08 Sep 2018 12:00:55: 3000000 INFO @ Sat, 08 Sep 2018 12:00:59: 3000000 INFO @ Sat, 08 Sep 2018 12:00:59: 3000000 INFO @ Sat, 08 Sep 2018 12:01:02: 4000000 INFO @ Sat, 08 Sep 2018 12:01:09: 4000000 INFO @ Sat, 08 Sep 2018 12:01:09: 4000000 INFO @ Sat, 08 Sep 2018 12:01:10: 5000000 INFO @ Sat, 08 Sep 2018 12:01:18: 6000000 INFO @ Sat, 08 Sep 2018 12:01:18: 5000000 INFO @ Sat, 08 Sep 2018 12:01:18: 5000000 INFO @ Sat, 08 Sep 2018 12:01:26: 7000000 INFO @ Sat, 08 Sep 2018 12:01:28: 6000000 INFO @ Sat, 08 Sep 2018 12:01:28: 6000000 INFO @ Sat, 08 Sep 2018 12:01:34: 8000000 INFO @ Sat, 08 Sep 2018 12:01:37: 7000000 INFO @ Sat, 08 Sep 2018 12:01:37: 7000000 INFO @ Sat, 08 Sep 2018 12:01:41: 9000000 INFO @ Sat, 08 Sep 2018 12:01:46: 8000000 INFO @ Sat, 08 Sep 2018 12:01:46: 8000000 INFO @ Sat, 08 Sep 2018 12:01:49: 10000000 INFO @ Sat, 08 Sep 2018 12:01:55: 9000000 INFO @ Sat, 08 Sep 2018 12:01:55: 9000000 INFO @ Sat, 08 Sep 2018 12:01:57: 11000000 INFO @ Sat, 08 Sep 2018 12:02:04: 10000000 INFO @ Sat, 08 Sep 2018 12:02:05: 10000000 INFO @ Sat, 08 Sep 2018 12:02:05: 12000000 INFO @ Sat, 08 Sep 2018 12:02:12: 13000000 INFO @ Sat, 08 Sep 2018 12:02:14: 11000000 INFO @ Sat, 08 Sep 2018 12:02:14: 11000000 INFO @ Sat, 08 Sep 2018 12:02:20: 14000000 INFO @ Sat, 08 Sep 2018 12:02:24: 12000000 INFO @ Sat, 08 Sep 2018 12:02:24: 12000000 INFO @ Sat, 08 Sep 2018 12:02:28: 15000000 INFO @ Sat, 08 Sep 2018 12:02:33: 13000000 INFO @ Sat, 08 Sep 2018 12:02:33: 13000000 INFO @ Sat, 08 Sep 2018 12:02:35: 16000000 INFO @ Sat, 08 Sep 2018 12:02:43: 14000000 INFO @ Sat, 08 Sep 2018 12:02:43: 14000000 INFO @ Sat, 08 Sep 2018 12:02:43: 17000000 INFO @ Sat, 08 Sep 2018 12:02:51: 18000000 INFO @ Sat, 08 Sep 2018 12:02:52: 15000000 INFO @ Sat, 08 Sep 2018 12:02:52: 15000000 INFO @ Sat, 08 Sep 2018 12:02:58: 19000000 INFO @ Sat, 08 Sep 2018 12:03:02: 16000000 INFO @ Sat, 08 Sep 2018 12:03:02: 16000000 INFO @ Sat, 08 Sep 2018 12:03:06: 20000000 INFO @ Sat, 08 Sep 2018 12:03:11: 17000000 INFO @ Sat, 08 Sep 2018 12:03:11: 17000000 INFO @ Sat, 08 Sep 2018 12:03:14: 21000000 INFO @ Sat, 08 Sep 2018 12:03:21: 18000000 INFO @ Sat, 08 Sep 2018 12:03:21: 18000000 INFO @ Sat, 08 Sep 2018 12:03:21: 22000000 INFO @ Sat, 08 Sep 2018 12:03:29: 23000000 INFO @ Sat, 08 Sep 2018 12:03:30: 19000000 INFO @ Sat, 08 Sep 2018 12:03:30: 19000000 INFO @ Sat, 08 Sep 2018 12:03:37: 24000000 INFO @ Sat, 08 Sep 2018 12:03:40: 20000000 INFO @ Sat, 08 Sep 2018 12:03:40: 20000000 INFO @ Sat, 08 Sep 2018 12:03:44: 25000000 INFO @ Sat, 08 Sep 2018 12:03:49: 21000000 INFO @ Sat, 08 Sep 2018 12:03:49: 21000000 INFO @ Sat, 08 Sep 2018 12:03:52: 26000000 INFO @ Sat, 08 Sep 2018 12:03:59: 22000000 INFO @ Sat, 08 Sep 2018 12:03:59: 22000000 INFO @ Sat, 08 Sep 2018 12:04:00: 27000000 INFO @ Sat, 08 Sep 2018 12:04:07: 28000000 INFO @ Sat, 08 Sep 2018 12:04:08: 23000000 INFO @ Sat, 08 Sep 2018 12:04:08: 23000000 INFO @ Sat, 08 Sep 2018 12:04:15: 29000000 INFO @ Sat, 08 Sep 2018 12:04:17: 24000000 INFO @ Sat, 08 Sep 2018 12:04:18: 24000000 INFO @ Sat, 08 Sep 2018 12:04:23: 30000000 INFO @ Sat, 08 Sep 2018 12:04:27: 25000000 INFO @ Sat, 08 Sep 2018 12:04:27: 25000000 INFO @ Sat, 08 Sep 2018 12:04:31: 31000000 INFO @ Sat, 08 Sep 2018 12:04:36: 26000000 INFO @ Sat, 08 Sep 2018 12:04:36: 26000000 INFO @ Sat, 08 Sep 2018 12:04:38: 32000000 INFO @ Sat, 08 Sep 2018 12:04:45: 27000000 INFO @ Sat, 08 Sep 2018 12:04:45: 27000000 INFO @ Sat, 08 Sep 2018 12:04:46: 33000000 INFO @ Sat, 08 Sep 2018 12:04:49: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:04:49: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:04:49: #1 total tags in treatment: 33331556 INFO @ Sat, 08 Sep 2018 12:04:49: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:04:49: #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 12:04:50: #1 tags after filtering in treatment: 33331556 INFO @ Sat, 08 Sep 2018 12:04:50: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:04:50: #1 finished! INFO @ Sat, 08 Sep 2018 12:04:50: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:04:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:04:52: #2 number of paired peaks: 58 WARNING @ Sat, 08 Sep 2018 12:04:52: 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 12:04:52: Process for pairing-model is terminated! cat: SRX2965733.10_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): 14 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2965733.10_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 `SRX2965733.10_*.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 `SRX2965733.10_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 12:04:55: 28000000 INFO @ Sat, 08 Sep 2018 12:04:55: 28000000 INFO @ Sat, 08 Sep 2018 12:05:05: 29000000 INFO @ Sat, 08 Sep 2018 12:05:05: 29000000 INFO @ Sat, 08 Sep 2018 12:05:14: 30000000 INFO @ Sat, 08 Sep 2018 12:05:14: 30000000 INFO @ Sat, 08 Sep 2018 12:05:24: 31000000 INFO @ Sat, 08 Sep 2018 12:05:24: 31000000 INFO @ Sat, 08 Sep 2018 12:05:33: 32000000 INFO @ Sat, 08 Sep 2018 12:05:34: 32000000 INFO @ Sat, 08 Sep 2018 12:05:43: 33000000 INFO @ Sat, 08 Sep 2018 12:05:43: 33000000 INFO @ Sat, 08 Sep 2018 12:05:46: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:05:46: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:05:46: #1 total tags in treatment: 33331556 INFO @ Sat, 08 Sep 2018 12:05:46: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:05:46: #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 12:05:46: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:05:46: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:05:46: #1 total tags in treatment: 33331556 INFO @ Sat, 08 Sep 2018 12:05:46: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:05:46: #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 12:05:46: #1 tags after filtering in treatment: 33331556 INFO @ Sat, 08 Sep 2018 12:05:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:05:46: #1 finished! INFO @ Sat, 08 Sep 2018 12:05:46: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:05:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:05:46: #1 tags after filtering in treatment: 33331556 INFO @ Sat, 08 Sep 2018 12:05:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:05:46: #1 finished! INFO @ Sat, 08 Sep 2018 12:05:46: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:05:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:05:48: #2 number of paired peaks: 58 WARNING @ Sat, 08 Sep 2018 12:05:48: 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 12:05:48: Process for pairing-model is terminated! cat: SRX2965733.20_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 `SRX2965733.20_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 `SRX2965733.20_*.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 `SRX2965733.20_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 12:05:49: #2 number of paired peaks: 58 WARNING @ Sat, 08 Sep 2018 12:05:49: 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 12:05:49: Process for pairing-model is terminated! cat: SRX2965733.05_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 `SRX2965733.05_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 `SRX2965733.05_*.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 `SRX2965733.05_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。