Job ID = 10845157 sra ファイルのダウンロード中... Completed: 1688473K bytes transferred in 104 seconds (132037K 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/SRX2973397/SRR5786972.sra Written 33011896 spots for /home/okishinya/chipatlas/results/ce10/SRX2973397/SRR5786972.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: 00:16:55 33011896 reads; of these: 33011896 (100.00%) were unpaired; of these: 3791268 (11.48%) aligned 0 times 24545205 (74.35%) aligned exactly 1 time 4675423 (14.16%) aligned >1 times 88.52% overall alignment rate Time searching: 00:16:55 Overall time: 00:16:55 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] 3656382 / 29220628 = 0.1251 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 @ Wed, 04 Jul 2018 09:56:38: # Command line: callpeak -t SRX2973397.bam -f BAM -g ce -n SRX2973397.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2973397.05 # format = BAM # ChIP-seq file = ['SRX2973397.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 @ Wed, 04 Jul 2018 09:56:38: #1 read tag files... INFO @ Wed, 04 Jul 2018 09:56:38: #1 read treatment tags... INFO @ Wed, 04 Jul 2018 09:56:38: # Command line: callpeak -t SRX2973397.bam -f BAM -g ce -n SRX2973397.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2973397.20 # format = BAM # ChIP-seq file = ['SRX2973397.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 @ Wed, 04 Jul 2018 09:56:38: #1 read tag files... INFO @ Wed, 04 Jul 2018 09:56:38: #1 read treatment tags... INFO @ Wed, 04 Jul 2018 09:56:38: # Command line: callpeak -t SRX2973397.bam -f BAM -g ce -n SRX2973397.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2973397.10 # format = BAM # ChIP-seq file = ['SRX2973397.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 @ Wed, 04 Jul 2018 09:56:38: #1 read tag files... INFO @ Wed, 04 Jul 2018 09:56:38: #1 read treatment tags... INFO @ Wed, 04 Jul 2018 09:56:47: 1000000 INFO @ Wed, 04 Jul 2018 09:56:47: 1000000 INFO @ Wed, 04 Jul 2018 09:56:48: 1000000 INFO @ Wed, 04 Jul 2018 09:56:55: 2000000 INFO @ Wed, 04 Jul 2018 09:56:55: 2000000 INFO @ Wed, 04 Jul 2018 09:56:58: 2000000 INFO @ Wed, 04 Jul 2018 09:57:04: 3000000 INFO @ Wed, 04 Jul 2018 09:57:04: 3000000 INFO @ Wed, 04 Jul 2018 09:57:08: 3000000 INFO @ Wed, 04 Jul 2018 09:57:13: 4000000 INFO @ Wed, 04 Jul 2018 09:57:13: 4000000 INFO @ Wed, 04 Jul 2018 09:57:19: 4000000 INFO @ Wed, 04 Jul 2018 09:57:21: 5000000 INFO @ Wed, 04 Jul 2018 09:57:22: 5000000 INFO @ Wed, 04 Jul 2018 09:57:29: 5000000 INFO @ Wed, 04 Jul 2018 09:57:30: 6000000 INFO @ Wed, 04 Jul 2018 09:57:30: 6000000 INFO @ Wed, 04 Jul 2018 09:57:39: 7000000 INFO @ Wed, 04 Jul 2018 09:57:39: 6000000 INFO @ Wed, 04 Jul 2018 09:57:39: 7000000 INFO @ Wed, 04 Jul 2018 09:57:47: 8000000 INFO @ Wed, 04 Jul 2018 09:57:47: 8000000 INFO @ Wed, 04 Jul 2018 09:57:49: 7000000 INFO @ Wed, 04 Jul 2018 09:57:56: 9000000 INFO @ Wed, 04 Jul 2018 09:57:56: 9000000 INFO @ Wed, 04 Jul 2018 09:58:00: 8000000 INFO @ Wed, 04 Jul 2018 09:58:05: 10000000 INFO @ Wed, 04 Jul 2018 09:58:05: 10000000 INFO @ Wed, 04 Jul 2018 09:58:10: 9000000 INFO @ Wed, 04 Jul 2018 09:58:13: 11000000 INFO @ Wed, 04 Jul 2018 09:58:14: 11000000 INFO @ Wed, 04 Jul 2018 09:58:21: 10000000 INFO @ Wed, 04 Jul 2018 09:58:22: 12000000 INFO @ Wed, 04 Jul 2018 09:58:22: 12000000 INFO @ Wed, 04 Jul 2018 09:58:30: 13000000 INFO @ Wed, 04 Jul 2018 09:58:31: 11000000 INFO @ Wed, 04 Jul 2018 09:58:31: 13000000 INFO @ Wed, 04 Jul 2018 09:58:39: 14000000 INFO @ Wed, 04 Jul 2018 09:58:40: 14000000 INFO @ Wed, 04 Jul 2018 09:58:41: 12000000 INFO @ Wed, 04 Jul 2018 09:58:47: 15000000 INFO @ Wed, 04 Jul 2018 09:58:49: 15000000 INFO @ Wed, 04 Jul 2018 09:58:52: 13000000 INFO @ Wed, 04 Jul 2018 09:58:56: 16000000 INFO @ Wed, 04 Jul 2018 09:58:58: 16000000 INFO @ Wed, 04 Jul 2018 09:59:03: 14000000 INFO @ Wed, 04 Jul 2018 09:59:05: 17000000 INFO @ Wed, 04 Jul 2018 09:59:07: 17000000 INFO @ Wed, 04 Jul 2018 09:59:13: 15000000 INFO @ Wed, 04 Jul 2018 09:59:13: 18000000 INFO @ Wed, 04 Jul 2018 09:59:16: 18000000 INFO @ Wed, 04 Jul 2018 09:59:22: 19000000 INFO @ Wed, 04 Jul 2018 09:59:24: 16000000 INFO @ Wed, 04 Jul 2018 09:59:25: 19000000 INFO @ Wed, 04 Jul 2018 09:59:31: 20000000 INFO @ Wed, 04 Jul 2018 09:59:33: 20000000 INFO @ Wed, 04 Jul 2018 09:59:34: 17000000 INFO @ Wed, 04 Jul 2018 09:59:38: 21000000 INFO @ Wed, 04 Jul 2018 09:59:42: 21000000 INFO @ Wed, 04 Jul 2018 09:59:43: 18000000 INFO @ Wed, 04 Jul 2018 09:59:46: 22000000 INFO @ Wed, 04 Jul 2018 09:59:50: 22000000 INFO @ Wed, 04 Jul 2018 09:59:53: 19000000 INFO @ Wed, 04 Jul 2018 09:59:53: 23000000 INFO @ Wed, 04 Jul 2018 09:59:58: 23000000 INFO @ Wed, 04 Jul 2018 10:00:00: 24000000 INFO @ Wed, 04 Jul 2018 10:00:03: 20000000 INFO @ Wed, 04 Jul 2018 10:00:07: 24000000 INFO @ Wed, 04 Jul 2018 10:00:07: 25000000 INFO @ Wed, 04 Jul 2018 10:00:12: #1 tag size is determined as 101 bps INFO @ Wed, 04 Jul 2018 10:00:12: #1 tag size = 101 INFO @ Wed, 04 Jul 2018 10:00:12: #1 total tags in treatment: 25564246 INFO @ Wed, 04 Jul 2018 10:00:12: #1 user defined the maximum tags... INFO @ Wed, 04 Jul 2018 10:00:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 04 Jul 2018 10:00:12: 21000000 INFO @ Wed, 04 Jul 2018 10:00:12: #1 tags after filtering in treatment: 25564246 INFO @ Wed, 04 Jul 2018 10:00:12: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 04 Jul 2018 10:00:12: #1 finished! INFO @ Wed, 04 Jul 2018 10:00:12: #2 Build Peak Model... INFO @ Wed, 04 Jul 2018 10:00:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 04 Jul 2018 10:00:14: #2 number of paired peaks: 88 WARNING @ Wed, 04 Jul 2018 10:00:14: Too few paired peaks (88) 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 @ Wed, 04 Jul 2018 10:00:14: Process for pairing-model is terminated! cat: SRX2973397.20_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 `SRX2973397.20_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 `SRX2973397.20_*.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 `SRX2973397.20_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 @ Wed, 04 Jul 2018 10:00:15: 25000000 INFO @ Wed, 04 Jul 2018 10:00:20: #1 tag size is determined as 101 bps INFO @ Wed, 04 Jul 2018 10:00:20: #1 tag size = 101 INFO @ Wed, 04 Jul 2018 10:00:20: #1 total tags in treatment: 25564246 INFO @ Wed, 04 Jul 2018 10:00:20: #1 user defined the maximum tags... INFO @ Wed, 04 Jul 2018 10:00:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 04 Jul 2018 10:00:20: 22000000 INFO @ Wed, 04 Jul 2018 10:00:20: #1 tags after filtering in treatment: 25564246 INFO @ Wed, 04 Jul 2018 10:00:20: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 04 Jul 2018 10:00:20: #1 finished! INFO @ Wed, 04 Jul 2018 10:00:20: #2 Build Peak Model... INFO @ Wed, 04 Jul 2018 10:00:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 04 Jul 2018 10:00:22: #2 number of paired peaks: 88 WARNING @ Wed, 04 Jul 2018 10:00:22: Too few paired peaks (88) 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 @ Wed, 04 Jul 2018 10:00:22: Process for pairing-model is terminated! cat: SRX2973397.10_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 `SRX2973397.10_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 `SRX2973397.10_*.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 `SRX2973397.10_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 @ Wed, 04 Jul 2018 10:00:27: 23000000 INFO @ Wed, 04 Jul 2018 10:00:34: 24000000 INFO @ Wed, 04 Jul 2018 10:00:41: 25000000 INFO @ Wed, 04 Jul 2018 10:00:46: #1 tag size is determined as 101 bps INFO @ Wed, 04 Jul 2018 10:00:46: #1 tag size = 101 INFO @ Wed, 04 Jul 2018 10:00:46: #1 total tags in treatment: 25564246 INFO @ Wed, 04 Jul 2018 10:00:46: #1 user defined the maximum tags... INFO @ Wed, 04 Jul 2018 10:00:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 04 Jul 2018 10:00:46: #1 tags after filtering in treatment: 25564246 INFO @ Wed, 04 Jul 2018 10:00:46: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 04 Jul 2018 10:00:46: #1 finished! INFO @ Wed, 04 Jul 2018 10:00:46: #2 Build Peak Model... INFO @ Wed, 04 Jul 2018 10:00:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 04 Jul 2018 10:00:48: #2 number of paired peaks: 88 WARNING @ Wed, 04 Jul 2018 10:00:48: Too few paired peaks (88) 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 @ Wed, 04 Jul 2018 10:00:48: Process for pairing-model is terminated! cat: SRX2973397.05_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 `SRX2973397.05_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 `SRX2973397.05_*.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 `SRX2973397.05_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。