Job ID = 10714394 sra ファイルのダウンロード中... Completed: 579230K bytes transferred in 12 seconds (366315K 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 26760587 spots for /home/okishinya/chipatlas/results/ce10/SRX4082354/SRR7164172.sra Written 26760587 spots for /home/okishinya/chipatlas/results/ce10/SRX4082354/SRR7164172.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: 00:06:53 26760587 reads; of these: 26760587 (100.00%) were unpaired; of these: 264237 (0.99%) aligned 0 times 22968825 (85.83%) aligned exactly 1 time 3527525 (13.18%) aligned >1 times 99.01% overall alignment rate Time searching: 00:06:53 Overall time: 00:06:53 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] 4681099 / 26496350 = 0.1767 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 12:43:13: # Command line: callpeak -t SRX4082354.bam -f BAM -g ce -n SRX4082354.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4082354.05 # format = BAM # ChIP-seq file = ['SRX4082354.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 12:43:13: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:43:13: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:43:13: # Command line: callpeak -t SRX4082354.bam -f BAM -g ce -n SRX4082354.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4082354.20 # format = BAM # ChIP-seq file = ['SRX4082354.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 12:43:13: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:43:13: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:43:13: # Command line: callpeak -t SRX4082354.bam -f BAM -g ce -n SRX4082354.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4082354.10 # format = BAM # ChIP-seq file = ['SRX4082354.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 12:43:13: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:43:13: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:43:19: 1000000 INFO @ Sun, 03 Jun 2018 12:43:20: 1000000 INFO @ Sun, 03 Jun 2018 12:43:20: 1000000 INFO @ Sun, 03 Jun 2018 12:43:25: 2000000 INFO @ Sun, 03 Jun 2018 12:43:26: 2000000 INFO @ Sun, 03 Jun 2018 12:43:26: 2000000 INFO @ Sun, 03 Jun 2018 12:43:31: 3000000 INFO @ Sun, 03 Jun 2018 12:43:33: 3000000 INFO @ Sun, 03 Jun 2018 12:43:33: 3000000 INFO @ Sun, 03 Jun 2018 12:43:37: 4000000 INFO @ Sun, 03 Jun 2018 12:43:39: 4000000 INFO @ Sun, 03 Jun 2018 12:43:39: 4000000 INFO @ Sun, 03 Jun 2018 12:43:43: 5000000 INFO @ Sun, 03 Jun 2018 12:43:46: 5000000 INFO @ Sun, 03 Jun 2018 12:43:46: 5000000 INFO @ Sun, 03 Jun 2018 12:43:50: 6000000 INFO @ Sun, 03 Jun 2018 12:43:52: 6000000 INFO @ Sun, 03 Jun 2018 12:43:52: 6000000 INFO @ Sun, 03 Jun 2018 12:43:56: 7000000 INFO @ Sun, 03 Jun 2018 12:43:59: 7000000 INFO @ Sun, 03 Jun 2018 12:43:59: 7000000 INFO @ Sun, 03 Jun 2018 12:44:02: 8000000 INFO @ Sun, 03 Jun 2018 12:44:05: 8000000 INFO @ Sun, 03 Jun 2018 12:44:05: 8000000 INFO @ Sun, 03 Jun 2018 12:44:08: 9000000 INFO @ Sun, 03 Jun 2018 12:44:12: 9000000 INFO @ Sun, 03 Jun 2018 12:44:12: 9000000 INFO @ Sun, 03 Jun 2018 12:44:14: 10000000 INFO @ Sun, 03 Jun 2018 12:44:18: 10000000 INFO @ Sun, 03 Jun 2018 12:44:18: 10000000 INFO @ Sun, 03 Jun 2018 12:44:20: 11000000 INFO @ Sun, 03 Jun 2018 12:44:25: 11000000 INFO @ Sun, 03 Jun 2018 12:44:25: 11000000 INFO @ Sun, 03 Jun 2018 12:44:26: 12000000 INFO @ Sun, 03 Jun 2018 12:44:31: 12000000 INFO @ Sun, 03 Jun 2018 12:44:31: 12000000 INFO @ Sun, 03 Jun 2018 12:44:32: 13000000 INFO @ Sun, 03 Jun 2018 12:44:38: 13000000 INFO @ Sun, 03 Jun 2018 12:44:38: 13000000 INFO @ Sun, 03 Jun 2018 12:44:38: 14000000 INFO @ Sun, 03 Jun 2018 12:44:44: 14000000 INFO @ Sun, 03 Jun 2018 12:44:44: 14000000 INFO @ Sun, 03 Jun 2018 12:44:44: 15000000 INFO @ Sun, 03 Jun 2018 12:44:50: 16000000 INFO @ Sun, 03 Jun 2018 12:44:51: 15000000 INFO @ Sun, 03 Jun 2018 12:44:51: 15000000 INFO @ Sun, 03 Jun 2018 12:44:56: 17000000 INFO @ Sun, 03 Jun 2018 12:44:57: 16000000 INFO @ Sun, 03 Jun 2018 12:44:57: 16000000 INFO @ Sun, 03 Jun 2018 12:45:03: 18000000 INFO @ Sun, 03 Jun 2018 12:45:04: 17000000 INFO @ Sun, 03 Jun 2018 12:45:04: 17000000 INFO @ Sun, 03 Jun 2018 12:45:09: 19000000 INFO @ Sun, 03 Jun 2018 12:45:10: 18000000 INFO @ Sun, 03 Jun 2018 12:45:10: 18000000 INFO @ Sun, 03 Jun 2018 12:45:15: 20000000 INFO @ Sun, 03 Jun 2018 12:45:17: 19000000 INFO @ Sun, 03 Jun 2018 12:45:17: 19000000 INFO @ Sun, 03 Jun 2018 12:45:21: 21000000 INFO @ Sun, 03 Jun 2018 12:45:24: 20000000 INFO @ Sun, 03 Jun 2018 12:45:24: 20000000 INFO @ Sun, 03 Jun 2018 12:45:26: #1 tag size is determined as 50 bps INFO @ Sun, 03 Jun 2018 12:45:26: #1 tag size = 50 INFO @ Sun, 03 Jun 2018 12:45:26: #1 total tags in treatment: 21815251 INFO @ Sun, 03 Jun 2018 12:45:26: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 12:45:26: #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 12:45:26: #1 tags after filtering in treatment: 21815251 INFO @ Sun, 03 Jun 2018 12:45:26: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 12:45:26: #1 finished! INFO @ Sun, 03 Jun 2018 12:45:26: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 12:45:26: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 12:45:28: #2 number of paired peaks: 62 WARNING @ Sun, 03 Jun 2018 12:45:28: Too few paired peaks (62) 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 12:45:28: Process for pairing-model is terminated! cat: SRX4082354.20_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 `SRX4082354.20_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 `SRX4082354.20_*.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 `SRX4082354.20_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 @ Sun, 03 Jun 2018 12:45:30: 21000000 INFO @ Sun, 03 Jun 2018 12:45:30: 21000000 INFO @ Sun, 03 Jun 2018 12:45:35: #1 tag size is determined as 50 bps INFO @ Sun, 03 Jun 2018 12:45:35: #1 tag size = 50 INFO @ Sun, 03 Jun 2018 12:45:35: #1 total tags in treatment: 21815251 INFO @ Sun, 03 Jun 2018 12:45:35: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 12:45:35: #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 12:45:35: #1 tag size is determined as 50 bps INFO @ Sun, 03 Jun 2018 12:45:35: #1 tag size = 50 INFO @ Sun, 03 Jun 2018 12:45:35: #1 total tags in treatment: 21815251 INFO @ Sun, 03 Jun 2018 12:45:35: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 12:45:35: #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 12:45:36: #1 tags after filtering in treatment: 21815251 INFO @ Sun, 03 Jun 2018 12:45:36: #1 tags after filtering in treatment: 21815251 INFO @ Sun, 03 Jun 2018 12:45:36: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 12:45:36: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 12:45:36: #1 finished! INFO @ Sun, 03 Jun 2018 12:45:36: #1 finished! INFO @ Sun, 03 Jun 2018 12:45:36: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 12:45:36: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 12:45:36: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 12:45:36: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 12:45:37: #2 number of paired peaks: 62 WARNING @ Sun, 03 Jun 2018 12:45:37: Too few paired peaks (62) 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 12:45:37: Process for pairing-model is terminated! cat: SRX4082354.10_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 `SRX4082354.10_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 `SRX4082354.10_*.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 `SRX4082354.10_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 12:45:37: #2 number of paired peaks: 62 WARNING @ Sun, 03 Jun 2018 12:45:37: Too few paired peaks (62) 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 12:45:37: Process for pairing-model is terminated! cat: SRX4082354.05_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 `SRX4082354.05_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 `SRX4082354.05_*.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 `SRX4082354.05_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。