Job ID = 9157392 sra ファイルのダウンロード中... Completed: 762794K bytes transferred in 11 seconds (548284K bits/sec), in 1 file, 2 directories. 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... Written 27895923 spots for /home/okishinya/chipatlas/results/ce10/SRX1936233/SRR3879839.sra Written 27895923 spots total 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: 00:08:57 27895923 reads; of these: 27895923 (100.00%) were unpaired; of these: 651557 (2.34%) aligned 0 times 23269538 (83.42%) aligned exactly 1 time 3974828 (14.25%) aligned >1 times 97.66% overall alignment rate Time searching: 00:08:57 Overall time: 00:08:57 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] 3688756 / 27244366 = 0.1354 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 @ Tue, 27 Jun 2017 11:56:42: # Command line: callpeak -t SRX1936233.bam -f BAM -g ce -n SRX1936233.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1936233.10 # format = BAM # ChIP-seq file = ['SRX1936233.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 @ Tue, 27 Jun 2017 11:56:42: #1 read tag files... INFO @ Tue, 27 Jun 2017 11:56:42: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 11:56:42: # Command line: callpeak -t SRX1936233.bam -f BAM -g ce -n SRX1936233.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1936233.05 # format = BAM # ChIP-seq file = ['SRX1936233.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 @ Tue, 27 Jun 2017 11:56:42: #1 read tag files... INFO @ Tue, 27 Jun 2017 11:56:42: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 11:56:42: # Command line: callpeak -t SRX1936233.bam -f BAM -g ce -n SRX1936233.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1936233.20 # format = BAM # ChIP-seq file = ['SRX1936233.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 @ Tue, 27 Jun 2017 11:56:42: #1 read tag files... INFO @ Tue, 27 Jun 2017 11:56:42: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 11:56:49: 1000000 INFO @ Tue, 27 Jun 2017 11:56:50: 1000000 INFO @ Tue, 27 Jun 2017 11:56:50: 1000000 INFO @ Tue, 27 Jun 2017 11:56:56: 2000000 INFO @ Tue, 27 Jun 2017 11:56:58: 2000000 INFO @ Tue, 27 Jun 2017 11:56:58: 2000000 INFO @ Tue, 27 Jun 2017 11:57:03: 3000000 INFO @ Tue, 27 Jun 2017 11:57:05: 3000000 INFO @ Tue, 27 Jun 2017 11:57:05: 3000000 INFO @ Tue, 27 Jun 2017 11:57:10: 4000000 INFO @ Tue, 27 Jun 2017 11:57:13: 4000000 INFO @ Tue, 27 Jun 2017 11:57:13: 4000000 INFO @ Tue, 27 Jun 2017 11:57:16: 5000000 INFO @ Tue, 27 Jun 2017 11:57:21: 5000000 INFO @ Tue, 27 Jun 2017 11:57:21: 5000000 INFO @ Tue, 27 Jun 2017 11:57:23: 6000000 INFO @ Tue, 27 Jun 2017 11:57:28: 6000000 INFO @ Tue, 27 Jun 2017 11:57:28: 6000000 INFO @ Tue, 27 Jun 2017 11:57:30: 7000000 INFO @ Tue, 27 Jun 2017 11:57:36: 7000000 INFO @ Tue, 27 Jun 2017 11:57:36: 7000000 INFO @ Tue, 27 Jun 2017 11:57:37: 8000000 INFO @ Tue, 27 Jun 2017 11:57:43: 8000000 INFO @ Tue, 27 Jun 2017 11:57:45: 8000000 INFO @ Tue, 27 Jun 2017 11:57:45: 9000000 INFO @ Tue, 27 Jun 2017 11:57:50: 9000000 INFO @ Tue, 27 Jun 2017 11:57:52: 10000000 INFO @ Tue, 27 Jun 2017 11:57:53: 9000000 INFO @ Tue, 27 Jun 2017 11:57:57: 10000000 INFO @ Tue, 27 Jun 2017 11:57:59: 11000000 INFO @ Tue, 27 Jun 2017 11:58:01: 10000000 INFO @ Tue, 27 Jun 2017 11:58:04: 11000000 INFO @ Tue, 27 Jun 2017 11:58:07: 12000000 INFO @ Tue, 27 Jun 2017 11:58:09: 11000000 INFO @ Tue, 27 Jun 2017 11:58:11: 12000000 INFO @ Tue, 27 Jun 2017 11:58:14: 13000000 INFO @ Tue, 27 Jun 2017 11:58:17: 12000000 INFO @ Tue, 27 Jun 2017 11:58:19: 13000000 INFO @ Tue, 27 Jun 2017 11:58:22: 14000000 INFO @ Tue, 27 Jun 2017 11:58:26: 13000000 INFO @ Tue, 27 Jun 2017 11:58:26: 14000000 INFO @ Tue, 27 Jun 2017 11:58:29: 15000000 INFO @ Tue, 27 Jun 2017 11:58:33: 15000000 INFO @ Tue, 27 Jun 2017 11:58:34: 14000000 INFO @ Tue, 27 Jun 2017 11:58:37: 16000000 INFO @ Tue, 27 Jun 2017 11:58:41: 16000000 INFO @ Tue, 27 Jun 2017 11:58:42: 15000000 INFO @ Tue, 27 Jun 2017 11:58:44: 17000000 INFO @ Tue, 27 Jun 2017 11:58:48: 17000000 INFO @ Tue, 27 Jun 2017 11:58:50: 16000000 INFO @ Tue, 27 Jun 2017 11:58:51: 18000000 INFO @ Tue, 27 Jun 2017 11:58:56: 18000000 INFO @ Tue, 27 Jun 2017 11:58:58: 17000000 INFO @ Tue, 27 Jun 2017 11:58:59: 19000000 INFO @ Tue, 27 Jun 2017 11:59:03: 19000000 INFO @ Tue, 27 Jun 2017 11:59:06: 20000000 INFO @ Tue, 27 Jun 2017 11:59:06: 18000000 INFO @ Tue, 27 Jun 2017 11:59:11: 20000000 INFO @ Tue, 27 Jun 2017 11:59:13: 21000000 INFO @ Tue, 27 Jun 2017 11:59:14: 19000000 INFO @ Tue, 27 Jun 2017 11:59:18: 21000000 INFO @ Tue, 27 Jun 2017 11:59:21: 22000000 INFO @ Tue, 27 Jun 2017 11:59:22: 20000000 INFO @ Tue, 27 Jun 2017 11:59:26: 22000000 INFO @ Tue, 27 Jun 2017 11:59:28: 23000000 INFO @ Tue, 27 Jun 2017 11:59:30: 21000000 INFO @ Tue, 27 Jun 2017 11:59:32: #1 tag size is determined as 52 bps INFO @ Tue, 27 Jun 2017 11:59:32: #1 tag size = 52 INFO @ Tue, 27 Jun 2017 11:59:32: #1 total tags in treatment: 23555610 INFO @ Tue, 27 Jun 2017 11:59:32: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 11:59:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 11:59:33: #1 tags after filtering in treatment: 23555610 INFO @ Tue, 27 Jun 2017 11:59:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 11:59:33: #1 finished! INFO @ Tue, 27 Jun 2017 11:59:33: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 11:59:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 11:59:33: 23000000 INFO @ Tue, 27 Jun 2017 11:59:35: #2 number of paired peaks: 58 WARNING @ Tue, 27 Jun 2017 11:59:35: 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 @ Tue, 27 Jun 2017 11:59:35: Process for pairing-model is terminated! cat: SRX1936233.10_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 `SRX1936233.10_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 `SRX1936233.10_*.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 `SRX1936233.10_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 @ Tue, 27 Jun 2017 11:59:37: #1 tag size is determined as 52 bps INFO @ Tue, 27 Jun 2017 11:59:37: #1 tag size = 52 INFO @ Tue, 27 Jun 2017 11:59:37: #1 total tags in treatment: 23555610 INFO @ Tue, 27 Jun 2017 11:59:37: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 11:59:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 11:59:37: 22000000 INFO @ Tue, 27 Jun 2017 11:59:38: #1 tags after filtering in treatment: 23555610 INFO @ Tue, 27 Jun 2017 11:59:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 11:59:38: #1 finished! INFO @ Tue, 27 Jun 2017 11:59:38: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 11:59:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 11:59:39: #2 number of paired peaks: 58 WARNING @ Tue, 27 Jun 2017 11:59:39: 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 @ Tue, 27 Jun 2017 11:59:39: Process for pairing-model is terminated! cat: SRX1936233.20_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 `SRX1936233.20_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 `SRX1936233.20_*.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 `SRX1936233.20_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 @ Tue, 27 Jun 2017 11:59:44: 23000000 INFO @ Tue, 27 Jun 2017 11:59:48: #1 tag size is determined as 52 bps INFO @ Tue, 27 Jun 2017 11:59:48: #1 tag size = 52 INFO @ Tue, 27 Jun 2017 11:59:48: #1 total tags in treatment: 23555610 INFO @ Tue, 27 Jun 2017 11:59:48: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 11:59:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 11:59:49: #1 tags after filtering in treatment: 23555610 INFO @ Tue, 27 Jun 2017 11:59:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 11:59:49: #1 finished! INFO @ Tue, 27 Jun 2017 11:59:49: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 11:59:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 11:59:50: #2 number of paired peaks: 58 WARNING @ Tue, 27 Jun 2017 11:59:50: 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 @ Tue, 27 Jun 2017 11:59:50: Process for pairing-model is terminated! cat: SRX1936233.05_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 `SRX1936233.05_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 `SRX1936233.05_*.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 `SRX1936233.05_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。