Job ID = 9157789 sra ファイルのダウンロード中... Completed: 908637K bytes transferred in 10 seconds (716253K 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 39842908 spots for /home/okishinya/chipatlas/results/ce10/SRX982110/SRR1956600.sra Written 39842908 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: 00:09:36 39842908 reads; of these: 39842908 (100.00%) were unpaired; of these: 5598843 (14.05%) aligned 0 times 28790308 (72.26%) aligned exactly 1 time 5453757 (13.69%) aligned >1 times 85.95% overall alignment rate Time searching: 00:09:36 Overall time: 00:09:36 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] 5411492 / 34244065 = 0.1580 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 13:54:46: # Command line: callpeak -t SRX982110.bam -f BAM -g ce -n SRX982110.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX982110.05 # format = BAM # ChIP-seq file = ['SRX982110.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 13:54:46: #1 read tag files... INFO @ Tue, 27 Jun 2017 13:54:46: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 13:54:46: # Command line: callpeak -t SRX982110.bam -f BAM -g ce -n SRX982110.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX982110.10 # format = BAM # ChIP-seq file = ['SRX982110.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 13:54:46: #1 read tag files... INFO @ Tue, 27 Jun 2017 13:54:46: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 13:54:46: # Command line: callpeak -t SRX982110.bam -f BAM -g ce -n SRX982110.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX982110.20 # format = BAM # ChIP-seq file = ['SRX982110.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 13:54:46: #1 read tag files... INFO @ Tue, 27 Jun 2017 13:54:46: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 13:54:53: 1000000 INFO @ Tue, 27 Jun 2017 13:54:53: 1000000 INFO @ Tue, 27 Jun 2017 13:54:53: 1000000 INFO @ Tue, 27 Jun 2017 13:54:59: 2000000 INFO @ Tue, 27 Jun 2017 13:55:00: 2000000 INFO @ Tue, 27 Jun 2017 13:55:00: 2000000 INFO @ Tue, 27 Jun 2017 13:55:06: 3000000 INFO @ Tue, 27 Jun 2017 13:55:07: 3000000 INFO @ Tue, 27 Jun 2017 13:55:07: 3000000 INFO @ Tue, 27 Jun 2017 13:55:12: 4000000 INFO @ Tue, 27 Jun 2017 13:55:13: 4000000 INFO @ Tue, 27 Jun 2017 13:55:13: 4000000 INFO @ Tue, 27 Jun 2017 13:55:19: 5000000 INFO @ Tue, 27 Jun 2017 13:55:20: 5000000 INFO @ Tue, 27 Jun 2017 13:55:21: 5000000 INFO @ Tue, 27 Jun 2017 13:55:27: 6000000 INFO @ Tue, 27 Jun 2017 13:55:27: 6000000 INFO @ Tue, 27 Jun 2017 13:55:29: 6000000 INFO @ Tue, 27 Jun 2017 13:55:34: 7000000 INFO @ Tue, 27 Jun 2017 13:55:34: 7000000 INFO @ Tue, 27 Jun 2017 13:55:37: 7000000 INFO @ Tue, 27 Jun 2017 13:55:41: 8000000 INFO @ Tue, 27 Jun 2017 13:55:41: 8000000 INFO @ Tue, 27 Jun 2017 13:55:45: 8000000 INFO @ Tue, 27 Jun 2017 13:55:47: 9000000 INFO @ Tue, 27 Jun 2017 13:55:48: 9000000 INFO @ Tue, 27 Jun 2017 13:55:53: 9000000 INFO @ Tue, 27 Jun 2017 13:55:54: 10000000 INFO @ Tue, 27 Jun 2017 13:55:55: 10000000 INFO @ Tue, 27 Jun 2017 13:56:01: 10000000 INFO @ Tue, 27 Jun 2017 13:56:01: 11000000 INFO @ Tue, 27 Jun 2017 13:56:02: 11000000 INFO @ Tue, 27 Jun 2017 13:56:08: 12000000 INFO @ Tue, 27 Jun 2017 13:56:08: 11000000 INFO @ Tue, 27 Jun 2017 13:56:10: 12000000 INFO @ Tue, 27 Jun 2017 13:56:15: 13000000 INFO @ Tue, 27 Jun 2017 13:56:16: 12000000 INFO @ Tue, 27 Jun 2017 13:56:17: 13000000 INFO @ Tue, 27 Jun 2017 13:56:21: 14000000 INFO @ Tue, 27 Jun 2017 13:56:24: 13000000 INFO @ Tue, 27 Jun 2017 13:56:24: 14000000 INFO @ Tue, 27 Jun 2017 13:56:28: 15000000 INFO @ Tue, 27 Jun 2017 13:56:32: 15000000 INFO @ Tue, 27 Jun 2017 13:56:32: 14000000 INFO @ Tue, 27 Jun 2017 13:56:35: 16000000 INFO @ Tue, 27 Jun 2017 13:56:39: 16000000 INFO @ Tue, 27 Jun 2017 13:56:40: 15000000 INFO @ Tue, 27 Jun 2017 13:56:41: 17000000 INFO @ Tue, 27 Jun 2017 13:56:46: 17000000 INFO @ Tue, 27 Jun 2017 13:56:48: 16000000 INFO @ Tue, 27 Jun 2017 13:56:48: 18000000 INFO @ Tue, 27 Jun 2017 13:56:54: 18000000 INFO @ Tue, 27 Jun 2017 13:56:55: 19000000 INFO @ Tue, 27 Jun 2017 13:56:56: 17000000 INFO @ Tue, 27 Jun 2017 13:57:01: 19000000 INFO @ Tue, 27 Jun 2017 13:57:01: 20000000 INFO @ Tue, 27 Jun 2017 13:57:04: 18000000 INFO @ Tue, 27 Jun 2017 13:57:08: 21000000 INFO @ Tue, 27 Jun 2017 13:57:08: 20000000 INFO @ Tue, 27 Jun 2017 13:57:11: 19000000 INFO @ Tue, 27 Jun 2017 13:57:14: 22000000 INFO @ Tue, 27 Jun 2017 13:57:15: 21000000 INFO @ Tue, 27 Jun 2017 13:57:19: 20000000 INFO @ Tue, 27 Jun 2017 13:57:21: 23000000 INFO @ Tue, 27 Jun 2017 13:57:22: 22000000 INFO @ Tue, 27 Jun 2017 13:57:27: 21000000 INFO @ Tue, 27 Jun 2017 13:57:28: 24000000 INFO @ Tue, 27 Jun 2017 13:57:29: 23000000 INFO @ Tue, 27 Jun 2017 13:57:34: 25000000 INFO @ Tue, 27 Jun 2017 13:57:35: 22000000 INFO @ Tue, 27 Jun 2017 13:57:37: 24000000 INFO @ Tue, 27 Jun 2017 13:57:41: 26000000 INFO @ Tue, 27 Jun 2017 13:57:42: 23000000 INFO @ Tue, 27 Jun 2017 13:57:44: 25000000 INFO @ Tue, 27 Jun 2017 13:57:47: 27000000 INFO @ Tue, 27 Jun 2017 13:57:50: 24000000 INFO @ Tue, 27 Jun 2017 13:57:51: 26000000 INFO @ Tue, 27 Jun 2017 13:57:54: 28000000 INFO @ Tue, 27 Jun 2017 13:57:58: 25000000 INFO @ Tue, 27 Jun 2017 13:57:58: 27000000 INFO @ Tue, 27 Jun 2017 13:58:00: #1 tag size is determined as 51 bps INFO @ Tue, 27 Jun 2017 13:58:00: #1 tag size = 51 INFO @ Tue, 27 Jun 2017 13:58:00: #1 total tags in treatment: 28832573 INFO @ Tue, 27 Jun 2017 13:58:00: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 13:58:00: #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 13:58:00: #1 tags after filtering in treatment: 28832573 INFO @ Tue, 27 Jun 2017 13:58:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 13:58:00: #1 finished! INFO @ Tue, 27 Jun 2017 13:58:00: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 13:58:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 13:58:02: #2 number of paired peaks: 86 WARNING @ Tue, 27 Jun 2017 13:58:02: Too few paired peaks (86) 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 13:58:02: Process for pairing-model is terminated! cat: SRX982110.05_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 `SRX982110.05_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 `SRX982110.05_*.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 `SRX982110.05_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 @ Tue, 27 Jun 2017 13:58:05: 28000000 INFO @ Tue, 27 Jun 2017 13:58:06: 26000000 INFO @ Tue, 27 Jun 2017 13:58:11: #1 tag size is determined as 51 bps INFO @ Tue, 27 Jun 2017 13:58:11: #1 tag size = 51 INFO @ Tue, 27 Jun 2017 13:58:11: #1 total tags in treatment: 28832573 INFO @ Tue, 27 Jun 2017 13:58:11: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 13:58:11: #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 13:58:12: #1 tags after filtering in treatment: 28832573 INFO @ Tue, 27 Jun 2017 13:58:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 13:58:12: #1 finished! INFO @ Tue, 27 Jun 2017 13:58:12: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 13:58:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 13:58:12: 27000000 INFO @ Tue, 27 Jun 2017 13:58:13: #2 number of paired peaks: 86 WARNING @ Tue, 27 Jun 2017 13:58:13: Too few paired peaks (86) 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 13:58:13: Process for pairing-model is terminated! cat: SRX982110.20_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 `SRX982110.20_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 `SRX982110.20_*.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 `SRX982110.20_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 13:58:18: 28000000 INFO @ Tue, 27 Jun 2017 13:58:24: #1 tag size is determined as 51 bps INFO @ Tue, 27 Jun 2017 13:58:24: #1 tag size = 51 INFO @ Tue, 27 Jun 2017 13:58:24: #1 total tags in treatment: 28832573 INFO @ Tue, 27 Jun 2017 13:58:24: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 13:58:24: #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 13:58:24: #1 tags after filtering in treatment: 28832573 INFO @ Tue, 27 Jun 2017 13:58:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 13:58:24: #1 finished! INFO @ Tue, 27 Jun 2017 13:58:24: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 13:58:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 13:58:26: #2 number of paired peaks: 86 WARNING @ Tue, 27 Jun 2017 13:58:26: Too few paired peaks (86) 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 13:58:26: Process for pairing-model is terminated! cat: SRX982110.10_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 `SRX982110.10_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 `SRX982110.10_*.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 `SRX982110.10_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。