Job ID = 10714391 sra ファイルのダウンロード中... Completed: 378055K bytes transferred in 10 seconds (296315K 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 17334172 spots for /home/okishinya/chipatlas/results/ce10/SRX4082351/SRR7164169.sra Written 17334172 spots for /home/okishinya/chipatlas/results/ce10/SRX4082351/SRR7164169.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:21 17334172 reads; of these: 17334172 (100.00%) were unpaired; of these: 226098 (1.30%) aligned 0 times 14954421 (86.27%) aligned exactly 1 time 2153653 (12.42%) aligned >1 times 98.70% overall alignment rate Time searching: 00:04:22 Overall time: 00:04:22 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 8 files... [bam_rmdupse_core] 2038192 / 17108074 = 0.1191 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 12:38:22: # Command line: callpeak -t SRX4082351.bam -f BAM -g ce -n SRX4082351.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4082351.10 # format = BAM # ChIP-seq file = ['SRX4082351.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 12:38:22: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:38:22: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:38:22: # Command line: callpeak -t SRX4082351.bam -f BAM -g ce -n SRX4082351.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4082351.05 # format = BAM # ChIP-seq file = ['SRX4082351.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 12:38:22: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:38:22: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:38:22: # Command line: callpeak -t SRX4082351.bam -f BAM -g ce -n SRX4082351.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4082351.20 # format = BAM # ChIP-seq file = ['SRX4082351.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 12:38:22: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:38:22: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:38:29: 1000000 INFO @ Sun, 03 Jun 2018 12:38:29: 1000000 INFO @ Sun, 03 Jun 2018 12:38:29: 1000000 INFO @ Sun, 03 Jun 2018 12:38:36: 2000000 INFO @ Sun, 03 Jun 2018 12:38:36: 2000000 INFO @ Sun, 03 Jun 2018 12:38:36: 2000000 INFO @ Sun, 03 Jun 2018 12:38:42: 3000000 INFO @ Sun, 03 Jun 2018 12:38:43: 3000000 INFO @ Sun, 03 Jun 2018 12:38:43: 3000000 INFO @ Sun, 03 Jun 2018 12:38:49: 4000000 INFO @ Sun, 03 Jun 2018 12:38:50: 4000000 INFO @ Sun, 03 Jun 2018 12:38:51: 4000000 INFO @ Sun, 03 Jun 2018 12:38:56: 5000000 INFO @ Sun, 03 Jun 2018 12:38:57: 5000000 INFO @ Sun, 03 Jun 2018 12:38:58: 5000000 INFO @ Sun, 03 Jun 2018 12:39:04: 6000000 INFO @ Sun, 03 Jun 2018 12:39:04: 6000000 INFO @ Sun, 03 Jun 2018 12:39:06: 6000000 INFO @ Sun, 03 Jun 2018 12:39:11: 7000000 INFO @ Sun, 03 Jun 2018 12:39:12: 7000000 INFO @ Sun, 03 Jun 2018 12:39:13: 7000000 INFO @ Sun, 03 Jun 2018 12:39:18: 8000000 INFO @ Sun, 03 Jun 2018 12:39:19: 8000000 INFO @ Sun, 03 Jun 2018 12:39:21: 8000000 INFO @ Sun, 03 Jun 2018 12:39:25: 9000000 INFO @ Sun, 03 Jun 2018 12:39:26: 9000000 INFO @ Sun, 03 Jun 2018 12:39:28: 9000000 INFO @ Sun, 03 Jun 2018 12:39:33: 10000000 INFO @ Sun, 03 Jun 2018 12:39:34: 10000000 INFO @ Sun, 03 Jun 2018 12:39:36: 10000000 INFO @ Sun, 03 Jun 2018 12:39:40: 11000000 INFO @ Sun, 03 Jun 2018 12:39:41: 11000000 INFO @ Sun, 03 Jun 2018 12:39:44: 11000000 INFO @ Sun, 03 Jun 2018 12:39:48: 12000000 INFO @ Sun, 03 Jun 2018 12:39:49: 12000000 INFO @ Sun, 03 Jun 2018 12:39:52: 12000000 INFO @ Sun, 03 Jun 2018 12:39:55: 13000000 INFO @ Sun, 03 Jun 2018 12:39:56: 13000000 INFO @ Sun, 03 Jun 2018 12:39:58: 13000000 INFO @ Sun, 03 Jun 2018 12:40:02: 14000000 INFO @ Sun, 03 Jun 2018 12:40:03: 14000000 INFO @ Sun, 03 Jun 2018 12:40:05: 14000000 INFO @ Sun, 03 Jun 2018 12:40:09: 15000000 INFO @ Sun, 03 Jun 2018 12:40:09: #1 tag size is determined as 49 bps INFO @ Sun, 03 Jun 2018 12:40:09: #1 tag size = 49 INFO @ Sun, 03 Jun 2018 12:40:09: #1 total tags in treatment: 15069882 INFO @ Sun, 03 Jun 2018 12:40:09: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 12:40:09: #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 12:40:10: #1 tags after filtering in treatment: 15069882 INFO @ Sun, 03 Jun 2018 12:40:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 12:40:10: #1 finished! INFO @ Sun, 03 Jun 2018 12:40:10: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 12:40:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 12:40:10: 15000000 INFO @ Sun, 03 Jun 2018 12:40:11: #2 number of paired peaks: 99 WARNING @ Sun, 03 Jun 2018 12:40:11: Too few paired peaks (99) 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 12:40:11: Process for pairing-model is terminated! cat: SRX4082351.10_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 `SRX4082351.10_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 `SRX4082351.10_*.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 `SRX4082351.10_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 12:40:11: #1 tag size is determined as 49 bps INFO @ Sun, 03 Jun 2018 12:40:11: #1 tag size = 49 INFO @ Sun, 03 Jun 2018 12:40:11: #1 total tags in treatment: 15069882 INFO @ Sun, 03 Jun 2018 12:40:11: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 12:40:11: #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 12:40:11: #1 tags after filtering in treatment: 15069882 INFO @ Sun, 03 Jun 2018 12:40:11: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 12:40:11: #1 finished! INFO @ Sun, 03 Jun 2018 12:40:11: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 12:40:11: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 12:40:12: #2 number of paired peaks: 99 WARNING @ Sun, 03 Jun 2018 12:40:12: Too few paired peaks (99) 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 12:40:12: Process for pairing-model is terminated! cat: SRX4082351.05_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 `SRX4082351.05_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 `SRX4082351.05_*.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 `SRX4082351.05_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 12:40:12: 15000000 INFO @ Sun, 03 Jun 2018 12:40:13: #1 tag size is determined as 49 bps INFO @ Sun, 03 Jun 2018 12:40:13: #1 tag size = 49 INFO @ Sun, 03 Jun 2018 12:40:13: #1 total tags in treatment: 15069882 INFO @ Sun, 03 Jun 2018 12:40:13: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 12:40:13: #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 12:40:13: #1 tags after filtering in treatment: 15069882 INFO @ Sun, 03 Jun 2018 12:40:13: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 12:40:13: #1 finished! INFO @ Sun, 03 Jun 2018 12:40:13: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 12:40:13: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 12:40:14: #2 number of paired peaks: 99 WARNING @ Sun, 03 Jun 2018 12:40:14: Too few paired peaks (99) 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 12:40:14: Process for pairing-model is terminated! cat: SRX4082351.20_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 `SRX4082351.20_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 `SRX4082351.20_*.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 `SRX4082351.20_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。