Job ID = 10714371 sra ファイルのダウンロード中... Completed: 875002K bytes transferred in 96 seconds (73918K 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 53040099 spots for /home/okishinya/chipatlas/results/ce10/SRX2985930/SRR5807080.sra Written 53040099 spots for /home/okishinya/chipatlas/results/ce10/SRX2985930/SRR5807080.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: 00:13:54 53040099 reads; of these: 53040099 (100.00%) were unpaired; of these: 1337672 (2.52%) aligned 0 times 39802416 (75.04%) aligned exactly 1 time 11900011 (22.44%) aligned >1 times 97.48% overall alignment rate Time searching: 00:13:54 Overall time: 00:13:54 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 24 files... [bam_rmdupse_core] 17657331 / 51702427 = 0.3415 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 12:55:46: # Command line: callpeak -t SRX2985930.bam -f BAM -g ce -n SRX2985930.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2985930.10 # format = BAM # ChIP-seq file = ['SRX2985930.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 12:55:46: # Command line: callpeak -t SRX2985930.bam -f BAM -g ce -n SRX2985930.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2985930.20 # format = BAM # ChIP-seq file = ['SRX2985930.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 12:55:46: # Command line: callpeak -t SRX2985930.bam -f BAM -g ce -n SRX2985930.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2985930.05 # format = BAM # ChIP-seq file = ['SRX2985930.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 12:55:46: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:55:46: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:55:46: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:55:46: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:55:46: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:55:46: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:55:54: 1000000 INFO @ Sun, 03 Jun 2018 12:55:54: 1000000 INFO @ Sun, 03 Jun 2018 12:55:54: 1000000 INFO @ Sun, 03 Jun 2018 12:56:00: 2000000 INFO @ Sun, 03 Jun 2018 12:56:00: 2000000 INFO @ Sun, 03 Jun 2018 12:56:01: 2000000 INFO @ Sun, 03 Jun 2018 12:56:08: 3000000 INFO @ Sun, 03 Jun 2018 12:56:08: 3000000 INFO @ Sun, 03 Jun 2018 12:56:08: 3000000 INFO @ Sun, 03 Jun 2018 12:56:15: 4000000 INFO @ Sun, 03 Jun 2018 12:56:15: 4000000 INFO @ Sun, 03 Jun 2018 12:56:15: 4000000 INFO @ Sun, 03 Jun 2018 12:56:22: 5000000 INFO @ Sun, 03 Jun 2018 12:56:22: 5000000 INFO @ Sun, 03 Jun 2018 12:56:22: 5000000 INFO @ Sun, 03 Jun 2018 12:56:28: 6000000 INFO @ Sun, 03 Jun 2018 12:56:30: 6000000 INFO @ Sun, 03 Jun 2018 12:56:30: 6000000 INFO @ Sun, 03 Jun 2018 12:56:35: 7000000 INFO @ Sun, 03 Jun 2018 12:56:37: 7000000 INFO @ Sun, 03 Jun 2018 12:56:37: 7000000 INFO @ Sun, 03 Jun 2018 12:56:42: 8000000 INFO @ Sun, 03 Jun 2018 12:56:44: 8000000 INFO @ Sun, 03 Jun 2018 12:56:45: 8000000 INFO @ Sun, 03 Jun 2018 12:56:49: 9000000 INFO @ Sun, 03 Jun 2018 12:56:52: 9000000 INFO @ Sun, 03 Jun 2018 12:56:53: 9000000 INFO @ Sun, 03 Jun 2018 12:56:56: 10000000 INFO @ Sun, 03 Jun 2018 12:56:59: 10000000 INFO @ Sun, 03 Jun 2018 12:57:01: 10000000 INFO @ Sun, 03 Jun 2018 12:57:03: 11000000 INFO @ Sun, 03 Jun 2018 12:57:07: 11000000 INFO @ Sun, 03 Jun 2018 12:57:09: 11000000 INFO @ Sun, 03 Jun 2018 12:57:10: 12000000 INFO @ Sun, 03 Jun 2018 12:57:15: 12000000 INFO @ Sun, 03 Jun 2018 12:57:17: 13000000 INFO @ Sun, 03 Jun 2018 12:57:17: 12000000 INFO @ Sun, 03 Jun 2018 12:57:22: 13000000 INFO @ Sun, 03 Jun 2018 12:57:24: 14000000 INFO @ Sun, 03 Jun 2018 12:57:25: 13000000 INFO @ Sun, 03 Jun 2018 12:57:30: 14000000 INFO @ Sun, 03 Jun 2018 12:57:31: 15000000 INFO @ Sun, 03 Jun 2018 12:57:33: 14000000 INFO @ Sun, 03 Jun 2018 12:57:37: 15000000 INFO @ Sun, 03 Jun 2018 12:57:38: 16000000 INFO @ Sun, 03 Jun 2018 12:57:41: 15000000 INFO @ Sun, 03 Jun 2018 12:57:45: 17000000 INFO @ Sun, 03 Jun 2018 12:57:45: 16000000 INFO @ Sun, 03 Jun 2018 12:57:49: 16000000 INFO @ Sun, 03 Jun 2018 12:57:52: 18000000 INFO @ Sun, 03 Jun 2018 12:57:53: 17000000 INFO @ Sun, 03 Jun 2018 12:57:57: 17000000 INFO @ Sun, 03 Jun 2018 12:57:59: 19000000 INFO @ Sun, 03 Jun 2018 12:58:00: 18000000 INFO @ Sun, 03 Jun 2018 12:58:05: 18000000 INFO @ Sun, 03 Jun 2018 12:58:06: 20000000 INFO @ Sun, 03 Jun 2018 12:58:08: 19000000 INFO @ Sun, 03 Jun 2018 12:58:13: 19000000 INFO @ Sun, 03 Jun 2018 12:58:13: 21000000 INFO @ Sun, 03 Jun 2018 12:58:15: 20000000 INFO @ Sun, 03 Jun 2018 12:58:20: 22000000 INFO @ Sun, 03 Jun 2018 12:58:21: 20000000 INFO @ Sun, 03 Jun 2018 12:58:22: 21000000 INFO @ Sun, 03 Jun 2018 12:58:27: 23000000 INFO @ Sun, 03 Jun 2018 12:58:29: 21000000 INFO @ Sun, 03 Jun 2018 12:58:30: 22000000 INFO @ Sun, 03 Jun 2018 12:58:35: 24000000 INFO @ Sun, 03 Jun 2018 12:58:36: 22000000 INFO @ Sun, 03 Jun 2018 12:58:37: 23000000 INFO @ Sun, 03 Jun 2018 12:58:42: 25000000 INFO @ Sun, 03 Jun 2018 12:58:44: 23000000 INFO @ Sun, 03 Jun 2018 12:58:44: 24000000 INFO @ Sun, 03 Jun 2018 12:58:49: 26000000 INFO @ Sun, 03 Jun 2018 12:58:52: 25000000 INFO @ Sun, 03 Jun 2018 12:58:52: 24000000 INFO @ Sun, 03 Jun 2018 12:58:56: 27000000 INFO @ Sun, 03 Jun 2018 12:58:59: 26000000 INFO @ Sun, 03 Jun 2018 12:59:00: 25000000 INFO @ Sun, 03 Jun 2018 12:59:03: 28000000 INFO @ Sun, 03 Jun 2018 12:59:07: 27000000 INFO @ Sun, 03 Jun 2018 12:59:07: 26000000 INFO @ Sun, 03 Jun 2018 12:59:11: 29000000 INFO @ Sun, 03 Jun 2018 12:59:14: 28000000 INFO @ Sun, 03 Jun 2018 12:59:16: 27000000 INFO @ Sun, 03 Jun 2018 12:59:18: 30000000 INFO @ Sun, 03 Jun 2018 12:59:21: 29000000 INFO @ Sun, 03 Jun 2018 12:59:23: 28000000 INFO @ Sun, 03 Jun 2018 12:59:25: 31000000 INFO @ Sun, 03 Jun 2018 12:59:29: 30000000 INFO @ Sun, 03 Jun 2018 12:59:32: 29000000 INFO @ Sun, 03 Jun 2018 12:59:33: 32000000 INFO @ Sun, 03 Jun 2018 12:59:37: 31000000 INFO @ Sun, 03 Jun 2018 12:59:40: 33000000 INFO @ Sun, 03 Jun 2018 12:59:40: 30000000 INFO @ Sun, 03 Jun 2018 12:59:45: 32000000 INFO @ Sun, 03 Jun 2018 12:59:47: 34000000 INFO @ Sun, 03 Jun 2018 12:59:48: #1 tag size is determined as 51 bps INFO @ Sun, 03 Jun 2018 12:59:48: #1 tag size = 51 INFO @ Sun, 03 Jun 2018 12:59:48: #1 total tags in treatment: 34045096 INFO @ Sun, 03 Jun 2018 12:59:48: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 12:59:48: #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 12:59:48: #1 tags after filtering in treatment: 34045096 INFO @ Sun, 03 Jun 2018 12:59:48: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 12:59:48: #1 finished! INFO @ Sun, 03 Jun 2018 12:59:48: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 12:59:48: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 12:59:49: 31000000 INFO @ Sun, 03 Jun 2018 12:59:50: #2 number of paired peaks: 44 WARNING @ Sun, 03 Jun 2018 12:59:50: Too few paired peaks (44) 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 12:59:50: Process for pairing-model is terminated! cat: SRX2985930.10_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 `SRX2985930.10_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 `SRX2985930.10_*.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 `SRX2985930.10_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 @ Sun, 03 Jun 2018 12:59:52: 33000000 INFO @ Sun, 03 Jun 2018 12:59:56: 32000000 INFO @ Sun, 03 Jun 2018 13:00:00: 34000000 INFO @ Sun, 03 Jun 2018 13:00:00: #1 tag size is determined as 51 bps INFO @ Sun, 03 Jun 2018 13:00:00: #1 tag size = 51 INFO @ Sun, 03 Jun 2018 13:00:00: #1 total tags in treatment: 34045096 INFO @ Sun, 03 Jun 2018 13:00:00: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 13:00:00: #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 13:00:01: #1 tags after filtering in treatment: 34045096 INFO @ Sun, 03 Jun 2018 13:00:01: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 13:00:01: #1 finished! INFO @ Sun, 03 Jun 2018 13:00:01: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 13:00:01: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 13:00:03: #2 number of paired peaks: 44 WARNING @ Sun, 03 Jun 2018 13:00:03: Too few paired peaks (44) 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 13:00:03: Process for pairing-model is terminated! cat: SRX2985930.05_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 `SRX2985930.05_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 `SRX2985930.05_*.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 `SRX2985930.05_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 13:00:04: 33000000 INFO @ Sun, 03 Jun 2018 13:00:11: 34000000 INFO @ Sun, 03 Jun 2018 13:00:12: #1 tag size is determined as 51 bps INFO @ Sun, 03 Jun 2018 13:00:12: #1 tag size = 51 INFO @ Sun, 03 Jun 2018 13:00:12: #1 total tags in treatment: 34045096 INFO @ Sun, 03 Jun 2018 13:00:12: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 13:00:12: #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 13:00:12: #1 tags after filtering in treatment: 34045096 INFO @ Sun, 03 Jun 2018 13:00:12: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 13:00:12: #1 finished! INFO @ Sun, 03 Jun 2018 13:00:12: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 13:00:12: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 13:00:14: #2 number of paired peaks: 44 WARNING @ Sun, 03 Jun 2018 13:00:14: Too few paired peaks (44) 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 13:00:14: Process for pairing-model is terminated! cat: SRX2985930.20_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 `SRX2985930.20_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 `SRX2985930.20_*.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 `SRX2985930.20_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。