Job ID = 10714366 sra ファイルのダウンロード中... Completed: 1688473K bytes transferred in 77 seconds (178087K 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 33011896 spots for /home/okishinya/chipatlas/results/ce10/SRX2965747/SRR5766332.sra Written 33011896 spots for /home/okishinya/chipatlas/results/ce10/SRX2965747/SRR5766332.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: 00:16:05 33011896 reads; of these: 33011896 (100.00%) were unpaired; of these: 3791242 (11.48%) aligned 0 times 24544979 (74.35%) aligned exactly 1 time 4675675 (14.16%) aligned >1 times 88.52% overall alignment rate Time searching: 00:16:05 Overall time: 00:16:05 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 12 files... [bam_rmdupse_core] 3657025 / 29220654 = 0.1252 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 @ Sun, 03 Jun 2018 12:56:36: # Command line: callpeak -t SRX2965747.bam -f BAM -g ce -n SRX2965747.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2965747.20 # format = BAM # ChIP-seq file = ['SRX2965747.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 @ Sun, 03 Jun 2018 12:56:36: # Command line: callpeak -t SRX2965747.bam -f BAM -g ce -n SRX2965747.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2965747.10 # format = BAM # ChIP-seq file = ['SRX2965747.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 @ Sun, 03 Jun 2018 12:56:36: # Command line: callpeak -t SRX2965747.bam -f BAM -g ce -n SRX2965747.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2965747.05 # format = BAM # ChIP-seq file = ['SRX2965747.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 @ Sun, 03 Jun 2018 12:56:36: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:56:36: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:56:36: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:56:36: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:56:36: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:56:36: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:56:44: 1000000 INFO @ Sun, 03 Jun 2018 12:56:44: 1000000 INFO @ Sun, 03 Jun 2018 12:56:44: 1000000 INFO @ Sun, 03 Jun 2018 12:56:51: 2000000 INFO @ Sun, 03 Jun 2018 12:56:51: 2000000 INFO @ Sun, 03 Jun 2018 12:56:52: 2000000 INFO @ Sun, 03 Jun 2018 12:56:58: 3000000 INFO @ Sun, 03 Jun 2018 12:56:59: 3000000 INFO @ Sun, 03 Jun 2018 12:56:59: 3000000 INFO @ Sun, 03 Jun 2018 12:57:05: 4000000 INFO @ Sun, 03 Jun 2018 12:57:07: 4000000 INFO @ Sun, 03 Jun 2018 12:57:07: 4000000 INFO @ Sun, 03 Jun 2018 12:57:12: 5000000 INFO @ Sun, 03 Jun 2018 12:57:14: 5000000 INFO @ Sun, 03 Jun 2018 12:57:15: 5000000 INFO @ Sun, 03 Jun 2018 12:57:19: 6000000 INFO @ Sun, 03 Jun 2018 12:57:22: 6000000 INFO @ Sun, 03 Jun 2018 12:57:23: 6000000 INFO @ Sun, 03 Jun 2018 12:57:26: 7000000 INFO @ Sun, 03 Jun 2018 12:57:30: 7000000 INFO @ Sun, 03 Jun 2018 12:57:31: 7000000 INFO @ Sun, 03 Jun 2018 12:57:33: 8000000 INFO @ Sun, 03 Jun 2018 12:57:38: 8000000 INFO @ Sun, 03 Jun 2018 12:57:39: 8000000 INFO @ Sun, 03 Jun 2018 12:57:40: 9000000 INFO @ Sun, 03 Jun 2018 12:57:46: 9000000 INFO @ Sun, 03 Jun 2018 12:57:47: 10000000 INFO @ Sun, 03 Jun 2018 12:57:47: 9000000 INFO @ Sun, 03 Jun 2018 12:57:54: 10000000 INFO @ Sun, 03 Jun 2018 12:57:54: 11000000 INFO @ Sun, 03 Jun 2018 12:57:55: 10000000 INFO @ Sun, 03 Jun 2018 12:58:01: 12000000 INFO @ Sun, 03 Jun 2018 12:58:02: 11000000 INFO @ Sun, 03 Jun 2018 12:58:03: 11000000 INFO @ Sun, 03 Jun 2018 12:58:08: 13000000 INFO @ Sun, 03 Jun 2018 12:58:09: 12000000 INFO @ Sun, 03 Jun 2018 12:58:11: 12000000 INFO @ Sun, 03 Jun 2018 12:58:15: 14000000 INFO @ Sun, 03 Jun 2018 12:58:17: 13000000 INFO @ Sun, 03 Jun 2018 12:58:19: 13000000 INFO @ Sun, 03 Jun 2018 12:58:23: 15000000 INFO @ Sun, 03 Jun 2018 12:58:26: 14000000 INFO @ Sun, 03 Jun 2018 12:58:28: 14000000 INFO @ Sun, 03 Jun 2018 12:58:32: 16000000 INFO @ Sun, 03 Jun 2018 12:58:35: 15000000 INFO @ Sun, 03 Jun 2018 12:58:37: 15000000 INFO @ Sun, 03 Jun 2018 12:58:41: 17000000 INFO @ Sun, 03 Jun 2018 12:58:44: 16000000 INFO @ Sun, 03 Jun 2018 12:58:46: 16000000 INFO @ Sun, 03 Jun 2018 12:58:50: 18000000 INFO @ Sun, 03 Jun 2018 12:58:53: 17000000 INFO @ Sun, 03 Jun 2018 12:58:55: 17000000 INFO @ Sun, 03 Jun 2018 12:59:00: 19000000 INFO @ Sun, 03 Jun 2018 12:59:02: 18000000 INFO @ Sun, 03 Jun 2018 12:59:04: 18000000 INFO @ Sun, 03 Jun 2018 12:59:09: 20000000 INFO @ Sun, 03 Jun 2018 12:59:11: 19000000 INFO @ Sun, 03 Jun 2018 12:59:14: 19000000 INFO @ Sun, 03 Jun 2018 12:59:19: 21000000 INFO @ Sun, 03 Jun 2018 12:59:20: 20000000 INFO @ Sun, 03 Jun 2018 12:59:23: 20000000 INFO @ Sun, 03 Jun 2018 12:59:29: 22000000 INFO @ Sun, 03 Jun 2018 12:59:29: 21000000 INFO @ Sun, 03 Jun 2018 12:59:32: 21000000 INFO @ Sun, 03 Jun 2018 12:59:38: 22000000 INFO @ Sun, 03 Jun 2018 12:59:38: 23000000 INFO @ Sun, 03 Jun 2018 12:59:41: 22000000 INFO @ Sun, 03 Jun 2018 12:59:47: 23000000 INFO @ Sun, 03 Jun 2018 12:59:48: 24000000 INFO @ Sun, 03 Jun 2018 12:59:51: 23000000 INFO @ Sun, 03 Jun 2018 12:59:56: 24000000 INFO @ Sun, 03 Jun 2018 12:59:57: 25000000 INFO @ Sun, 03 Jun 2018 13:00:00: 24000000 INFO @ Sun, 03 Jun 2018 13:00:03: #1 tag size is determined as 101 bps INFO @ Sun, 03 Jun 2018 13:00:03: #1 tag size = 101 INFO @ Sun, 03 Jun 2018 13:00:03: #1 total tags in treatment: 25563629 INFO @ Sun, 03 Jun 2018 13:00:03: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 13:00:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Jun 2018 13:00:04: #1 tags after filtering in treatment: 25563629 INFO @ Sun, 03 Jun 2018 13:00:04: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 13:00:04: #1 finished! INFO @ Sun, 03 Jun 2018 13:00:04: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 13:00:04: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 13:00:05: 25000000 INFO @ Sun, 03 Jun 2018 13:00:05: #2 number of paired peaks: 89 WARNING @ Sun, 03 Jun 2018 13:00:05: Too few paired peaks (89) 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 @ Sun, 03 Jun 2018 13:00:05: Process for pairing-model is terminated! cat: SRX2965747.20_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 `SRX2965747.20_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 `SRX2965747.20_*.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 `SRX2965747.20_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 @ Sun, 03 Jun 2018 13:00:08: 25000000 INFO @ Sun, 03 Jun 2018 13:00:09: #1 tag size is determined as 101 bps INFO @ Sun, 03 Jun 2018 13:00:09: #1 tag size = 101 INFO @ Sun, 03 Jun 2018 13:00:09: #1 total tags in treatment: 25563629 INFO @ Sun, 03 Jun 2018 13:00:09: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 13:00:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Jun 2018 13:00:10: #1 tags after filtering in treatment: 25563629 INFO @ Sun, 03 Jun 2018 13:00:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 13:00:10: #1 finished! INFO @ Sun, 03 Jun 2018 13:00:10: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 13:00:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 13:00:12: #2 number of paired peaks: 89 WARNING @ Sun, 03 Jun 2018 13:00:12: Too few paired peaks (89) 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 @ Sun, 03 Jun 2018 13:00:12: Process for pairing-model is terminated! cat: SRX2965747.05_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 `SRX2965747.05_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 `SRX2965747.05_*.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 `SRX2965747.05_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 @ Sun, 03 Jun 2018 13:00:13: #1 tag size is determined as 101 bps INFO @ Sun, 03 Jun 2018 13:00:13: #1 tag size = 101 INFO @ Sun, 03 Jun 2018 13:00:13: #1 total tags in treatment: 25563629 INFO @ Sun, 03 Jun 2018 13:00:13: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 13:00:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Jun 2018 13:00:13: #1 tags after filtering in treatment: 25563629 INFO @ Sun, 03 Jun 2018 13:00:13: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 13:00:13: #1 finished! INFO @ Sun, 03 Jun 2018 13:00:13: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 13:00:13: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 13:00:15: #2 number of paired peaks: 89 WARNING @ Sun, 03 Jun 2018 13:00:15: Too few paired peaks (89) 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 @ Sun, 03 Jun 2018 13:00:15: Process for pairing-model is terminated! cat: SRX2965747.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2965747.10_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 `SRX2965747.10_*.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 `SRX2965747.10_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。