Job ID = 11170837 sra ファイルのダウンロード中... Completed: 1064139K bytes transferred in 122 seconds (71403K 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 40124136 spots for /home/okishinya/chipatlas/results/ce10/SRX3583337/SRR6493993.sra Written 40124136 spots for /home/okishinya/chipatlas/results/ce10/SRX3583337/SRR6493993.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: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:14:20 40124136 reads; of these: 40124136 (100.00%) were unpaired; of these: 2555191 (6.37%) aligned 0 times 32189911 (80.23%) aligned exactly 1 time 5379034 (13.41%) aligned >1 times 93.63% overall alignment rate Time searching: 00:14:21 Overall time: 00:14:21 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] 8014408 / 37568945 = 0.2133 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 @ Sat, 08 Sep 2018 11:52:17: # Command line: callpeak -t SRX3583337.bam -f BAM -g ce -n SRX3583337.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3583337.10 # format = BAM # ChIP-seq file = ['SRX3583337.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 @ Sat, 08 Sep 2018 11:52:17: # Command line: callpeak -t SRX3583337.bam -f BAM -g ce -n SRX3583337.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3583337.20 # format = BAM # ChIP-seq file = ['SRX3583337.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 @ Sat, 08 Sep 2018 11:52:17: # Command line: callpeak -t SRX3583337.bam -f BAM -g ce -n SRX3583337.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3583337.05 # format = BAM # ChIP-seq file = ['SRX3583337.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 @ Sat, 08 Sep 2018 11:52:17: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:52:17: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:52:17: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:52:17: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:52:17: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:52:17: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:52:23: 1000000 INFO @ Sat, 08 Sep 2018 11:52:24: 1000000 INFO @ Sat, 08 Sep 2018 11:52:24: 1000000 INFO @ Sat, 08 Sep 2018 11:52:30: 2000000 INFO @ Sat, 08 Sep 2018 11:52:30: 2000000 INFO @ Sat, 08 Sep 2018 11:52:30: 2000000 INFO @ Sat, 08 Sep 2018 11:52:36: 3000000 INFO @ Sat, 08 Sep 2018 11:52:36: 3000000 INFO @ Sat, 08 Sep 2018 11:52:37: 3000000 INFO @ Sat, 08 Sep 2018 11:52:43: 4000000 INFO @ Sat, 08 Sep 2018 11:52:43: 4000000 INFO @ Sat, 08 Sep 2018 11:52:44: 4000000 INFO @ Sat, 08 Sep 2018 11:52:49: 5000000 INFO @ Sat, 08 Sep 2018 11:52:49: 5000000 INFO @ Sat, 08 Sep 2018 11:52:51: 5000000 INFO @ Sat, 08 Sep 2018 11:52:55: 6000000 INFO @ Sat, 08 Sep 2018 11:52:56: 6000000 INFO @ Sat, 08 Sep 2018 11:52:58: 6000000 INFO @ Sat, 08 Sep 2018 11:53:02: 7000000 INFO @ Sat, 08 Sep 2018 11:53:02: 7000000 INFO @ Sat, 08 Sep 2018 11:53:05: 7000000 INFO @ Sat, 08 Sep 2018 11:53:09: 8000000 INFO @ Sat, 08 Sep 2018 11:53:09: 8000000 INFO @ Sat, 08 Sep 2018 11:53:13: 8000000 INFO @ Sat, 08 Sep 2018 11:53:16: 9000000 INFO @ Sat, 08 Sep 2018 11:53:16: 9000000 INFO @ Sat, 08 Sep 2018 11:53:21: 9000000 INFO @ Sat, 08 Sep 2018 11:53:23: 10000000 INFO @ Sat, 08 Sep 2018 11:53:24: 10000000 INFO @ Sat, 08 Sep 2018 11:53:29: 10000000 INFO @ Sat, 08 Sep 2018 11:53:30: 11000000 INFO @ Sat, 08 Sep 2018 11:53:31: 11000000 INFO @ Sat, 08 Sep 2018 11:53:37: 12000000 INFO @ Sat, 08 Sep 2018 11:53:37: 11000000 INFO @ Sat, 08 Sep 2018 11:53:38: 12000000 INFO @ Sat, 08 Sep 2018 11:53:43: 13000000 INFO @ Sat, 08 Sep 2018 11:53:44: 12000000 INFO @ Sat, 08 Sep 2018 11:53:44: 13000000 INFO @ Sat, 08 Sep 2018 11:53:49: 14000000 INFO @ Sat, 08 Sep 2018 11:53:51: 13000000 INFO @ Sat, 08 Sep 2018 11:53:51: 14000000 INFO @ Sat, 08 Sep 2018 11:53:56: 15000000 INFO @ Sat, 08 Sep 2018 11:53:57: 15000000 INFO @ Sat, 08 Sep 2018 11:53:58: 14000000 INFO @ Sat, 08 Sep 2018 11:54:02: 16000000 INFO @ Sat, 08 Sep 2018 11:54:04: 16000000 INFO @ Sat, 08 Sep 2018 11:54:05: 15000000 INFO @ Sat, 08 Sep 2018 11:54:08: 17000000 INFO @ Sat, 08 Sep 2018 11:54:11: 17000000 INFO @ Sat, 08 Sep 2018 11:54:12: 16000000 INFO @ Sat, 08 Sep 2018 11:54:14: 18000000 INFO @ Sat, 08 Sep 2018 11:54:17: 18000000 INFO @ Sat, 08 Sep 2018 11:54:18: 17000000 INFO @ Sat, 08 Sep 2018 11:54:21: 19000000 INFO @ Sat, 08 Sep 2018 11:54:24: 19000000 INFO @ Sat, 08 Sep 2018 11:54:26: 18000000 INFO @ Sat, 08 Sep 2018 11:54:27: 20000000 INFO @ Sat, 08 Sep 2018 11:54:30: 20000000 INFO @ Sat, 08 Sep 2018 11:54:33: 19000000 INFO @ Sat, 08 Sep 2018 11:54:34: 21000000 INFO @ Sat, 08 Sep 2018 11:54:37: 21000000 INFO @ Sat, 08 Sep 2018 11:54:40: 20000000 INFO @ Sat, 08 Sep 2018 11:54:41: 22000000 INFO @ Sat, 08 Sep 2018 11:54:43: 22000000 INFO @ Sat, 08 Sep 2018 11:54:48: 23000000 INFO @ Sat, 08 Sep 2018 11:54:48: 21000000 INFO @ Sat, 08 Sep 2018 11:54:50: 23000000 INFO @ Sat, 08 Sep 2018 11:54:54: 24000000 INFO @ Sat, 08 Sep 2018 11:54:55: 22000000 INFO @ Sat, 08 Sep 2018 11:54:56: 24000000 INFO @ Sat, 08 Sep 2018 11:55:01: 25000000 INFO @ Sat, 08 Sep 2018 11:55:02: 23000000 INFO @ Sat, 08 Sep 2018 11:55:03: 25000000 INFO @ Sat, 08 Sep 2018 11:55:08: 26000000 INFO @ Sat, 08 Sep 2018 11:55:09: 24000000 INFO @ Sat, 08 Sep 2018 11:55:09: 26000000 INFO @ Sat, 08 Sep 2018 11:55:14: 27000000 INFO @ Sat, 08 Sep 2018 11:55:16: 25000000 INFO @ Sat, 08 Sep 2018 11:55:16: 27000000 INFO @ Sat, 08 Sep 2018 11:55:21: 28000000 INFO @ Sat, 08 Sep 2018 11:55:22: 26000000 INFO @ Sat, 08 Sep 2018 11:55:23: 28000000 INFO @ Sat, 08 Sep 2018 11:55:27: 29000000 INFO @ Sat, 08 Sep 2018 11:55:29: 27000000 INFO @ Sat, 08 Sep 2018 11:55:29: 29000000 INFO @ Sat, 08 Sep 2018 11:55:31: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:55:31: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:55:31: #1 total tags in treatment: 29554537 INFO @ Sat, 08 Sep 2018 11:55:31: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:55:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Sep 2018 11:55:31: #1 tags after filtering in treatment: 29554537 INFO @ Sat, 08 Sep 2018 11:55:31: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:55:31: #1 finished! INFO @ Sat, 08 Sep 2018 11:55:31: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:55:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:55:33: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:55:33: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:55:33: #1 total tags in treatment: 29554537 INFO @ Sat, 08 Sep 2018 11:55:33: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:55:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Sep 2018 11:55:33: #2 number of paired peaks: 48 WARNING @ Sat, 08 Sep 2018 11:55:33: Too few paired peaks (48) 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 @ Sat, 08 Sep 2018 11:55:33: Process for pairing-model is terminated! cat: SRX3583337.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3583337.05_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 `SRX3583337.05_*.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 `SRX3583337.05_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 @ Sat, 08 Sep 2018 11:55:34: #1 tags after filtering in treatment: 29554537 INFO @ Sat, 08 Sep 2018 11:55:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:55:34: #1 finished! INFO @ Sat, 08 Sep 2018 11:55:34: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:55:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:55:35: #2 number of paired peaks: 48 WARNING @ Sat, 08 Sep 2018 11:55:35: Too few paired peaks (48) 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 @ Sat, 08 Sep 2018 11:55:35: Process for pairing-model is terminated! cat: SRX3583337.20_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 `SRX3583337.20_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 `SRX3583337.20_*.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 `SRX3583337.20_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 @ Sat, 08 Sep 2018 11:55:36: 28000000 INFO @ Sat, 08 Sep 2018 11:55:42: 29000000 INFO @ Sat, 08 Sep 2018 11:55:46: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:55:46: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:55:46: #1 total tags in treatment: 29554537 INFO @ Sat, 08 Sep 2018 11:55:46: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:55:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Sep 2018 11:55:46: #1 tags after filtering in treatment: 29554537 INFO @ Sat, 08 Sep 2018 11:55:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:55:46: #1 finished! INFO @ Sat, 08 Sep 2018 11:55:46: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:55:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:55:48: #2 number of paired peaks: 48 WARNING @ Sat, 08 Sep 2018 11:55:48: Too few paired peaks (48) 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 @ Sat, 08 Sep 2018 11:55:48: Process for pairing-model is terminated! cat: SRX3583337.10_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 `SRX3583337.10_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 `SRX3583337.10_*.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 `SRX3583337.10_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。