Job ID = 11170822 sra ファイルのダウンロード中... Completed: 1379001K bytes transferred in 119 seconds (94271K 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 47036427 spots for /home/okishinya/chipatlas/results/ce10/SRX2973398/SRR5786971.sra Written 47036427 spots for /home/okishinya/chipatlas/results/ce10/SRX2973398/SRR5786971.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: 00:18:58 47036427 reads; of these: 47036427 (100.00%) were unpaired; of these: 4272190 (9.08%) aligned 0 times 35550019 (75.58%) aligned exactly 1 time 7214218 (15.34%) aligned >1 times 90.92% overall alignment rate Time searching: 00:18:58 Overall time: 00:18:58 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 20 files... [bam_rmdupse_core] 9432844 / 42764237 = 0.2206 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 12:00:06: # Command line: callpeak -t SRX2973398.bam -f BAM -g ce -n SRX2973398.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2973398.20 # format = BAM # ChIP-seq file = ['SRX2973398.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 12:00:06: # Command line: callpeak -t SRX2973398.bam -f BAM -g ce -n SRX2973398.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2973398.10 # format = BAM # ChIP-seq file = ['SRX2973398.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 12:00:06: # Command line: callpeak -t SRX2973398.bam -f BAM -g ce -n SRX2973398.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2973398.05 # format = BAM # ChIP-seq file = ['SRX2973398.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 12:00:06: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:00:06: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:00:06: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:00:06: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:00:06: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:00:06: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:00:13: 1000000 INFO @ Sat, 08 Sep 2018 12:00:13: 1000000 INFO @ Sat, 08 Sep 2018 12:00:14: 1000000 INFO @ Sat, 08 Sep 2018 12:00:20: 2000000 INFO @ Sat, 08 Sep 2018 12:00:21: 2000000 INFO @ Sat, 08 Sep 2018 12:00:21: 2000000 INFO @ Sat, 08 Sep 2018 12:00:27: 3000000 INFO @ Sat, 08 Sep 2018 12:00:29: 3000000 INFO @ Sat, 08 Sep 2018 12:00:30: 3000000 INFO @ Sat, 08 Sep 2018 12:00:34: 4000000 INFO @ Sat, 08 Sep 2018 12:00:36: 4000000 INFO @ Sat, 08 Sep 2018 12:00:38: 4000000 INFO @ Sat, 08 Sep 2018 12:00:41: 5000000 INFO @ Sat, 08 Sep 2018 12:00:44: 5000000 INFO @ Sat, 08 Sep 2018 12:00:47: 5000000 INFO @ Sat, 08 Sep 2018 12:00:48: 6000000 INFO @ Sat, 08 Sep 2018 12:00:52: 6000000 INFO @ Sat, 08 Sep 2018 12:00:55: 6000000 INFO @ Sat, 08 Sep 2018 12:00:55: 7000000 INFO @ Sat, 08 Sep 2018 12:01:00: 7000000 INFO @ Sat, 08 Sep 2018 12:01:02: 8000000 INFO @ Sat, 08 Sep 2018 12:01:04: 7000000 INFO @ Sat, 08 Sep 2018 12:01:07: 8000000 INFO @ Sat, 08 Sep 2018 12:01:09: 9000000 INFO @ Sat, 08 Sep 2018 12:01:12: 8000000 INFO @ Sat, 08 Sep 2018 12:01:15: 9000000 INFO @ Sat, 08 Sep 2018 12:01:16: 10000000 INFO @ Sat, 08 Sep 2018 12:01:21: 9000000 INFO @ Sat, 08 Sep 2018 12:01:23: 10000000 INFO @ Sat, 08 Sep 2018 12:01:23: 11000000 INFO @ Sat, 08 Sep 2018 12:01:29: 10000000 INFO @ Sat, 08 Sep 2018 12:01:30: 12000000 INFO @ Sat, 08 Sep 2018 12:01:31: 11000000 INFO @ Sat, 08 Sep 2018 12:01:37: 13000000 INFO @ Sat, 08 Sep 2018 12:01:38: 11000000 INFO @ Sat, 08 Sep 2018 12:01:39: 12000000 INFO @ Sat, 08 Sep 2018 12:01:44: 14000000 INFO @ Sat, 08 Sep 2018 12:01:46: 12000000 INFO @ Sat, 08 Sep 2018 12:01:46: 13000000 INFO @ Sat, 08 Sep 2018 12:01:51: 15000000 INFO @ Sat, 08 Sep 2018 12:01:54: 14000000 INFO @ Sat, 08 Sep 2018 12:01:54: 13000000 INFO @ Sat, 08 Sep 2018 12:01:58: 16000000 INFO @ Sat, 08 Sep 2018 12:02:02: 15000000 INFO @ Sat, 08 Sep 2018 12:02:03: 14000000 INFO @ Sat, 08 Sep 2018 12:02:05: 17000000 INFO @ Sat, 08 Sep 2018 12:02:10: 16000000 INFO @ Sat, 08 Sep 2018 12:02:11: 15000000 INFO @ Sat, 08 Sep 2018 12:02:12: 18000000 INFO @ Sat, 08 Sep 2018 12:02:17: 17000000 INFO @ Sat, 08 Sep 2018 12:02:19: 19000000 INFO @ Sat, 08 Sep 2018 12:02:19: 16000000 INFO @ Sat, 08 Sep 2018 12:02:25: 18000000 INFO @ Sat, 08 Sep 2018 12:02:26: 20000000 INFO @ Sat, 08 Sep 2018 12:02:28: 17000000 INFO @ Sat, 08 Sep 2018 12:02:33: 21000000 INFO @ Sat, 08 Sep 2018 12:02:33: 19000000 INFO @ Sat, 08 Sep 2018 12:02:36: 18000000 INFO @ Sat, 08 Sep 2018 12:02:40: 22000000 INFO @ Sat, 08 Sep 2018 12:02:41: 20000000 INFO @ Sat, 08 Sep 2018 12:02:44: 19000000 INFO @ Sat, 08 Sep 2018 12:02:47: 23000000 INFO @ Sat, 08 Sep 2018 12:02:48: 21000000 INFO @ Sat, 08 Sep 2018 12:02:52: 20000000 INFO @ Sat, 08 Sep 2018 12:02:54: 24000000 INFO @ Sat, 08 Sep 2018 12:02:56: 22000000 INFO @ Sat, 08 Sep 2018 12:03:01: 21000000 INFO @ Sat, 08 Sep 2018 12:03:01: 25000000 INFO @ Sat, 08 Sep 2018 12:03:04: 23000000 INFO @ Sat, 08 Sep 2018 12:03:08: 26000000 INFO @ Sat, 08 Sep 2018 12:03:09: 22000000 INFO @ Sat, 08 Sep 2018 12:03:12: 24000000 INFO @ Sat, 08 Sep 2018 12:03:15: 27000000 INFO @ Sat, 08 Sep 2018 12:03:17: 23000000 INFO @ Sat, 08 Sep 2018 12:03:19: 25000000 INFO @ Sat, 08 Sep 2018 12:03:22: 28000000 INFO @ Sat, 08 Sep 2018 12:03:25: 24000000 INFO @ Sat, 08 Sep 2018 12:03:27: 26000000 INFO @ Sat, 08 Sep 2018 12:03:29: 29000000 INFO @ Sat, 08 Sep 2018 12:03:33: 25000000 INFO @ Sat, 08 Sep 2018 12:03:36: 27000000 INFO @ Sat, 08 Sep 2018 12:03:36: 30000000 INFO @ Sat, 08 Sep 2018 12:03:41: 26000000 INFO @ Sat, 08 Sep 2018 12:03:43: 31000000 INFO @ Sat, 08 Sep 2018 12:03:44: 28000000 INFO @ Sat, 08 Sep 2018 12:03:49: 27000000 INFO @ Sat, 08 Sep 2018 12:03:50: 32000000 INFO @ Sat, 08 Sep 2018 12:03:52: 29000000 INFO @ Sat, 08 Sep 2018 12:03:57: 33000000 INFO @ Sat, 08 Sep 2018 12:03:57: 28000000 INFO @ Sat, 08 Sep 2018 12:03:59: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:03:59: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:03:59: #1 total tags in treatment: 33331393 INFO @ Sat, 08 Sep 2018 12:03:59: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:03:59: #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 12:04:00: 30000000 INFO @ Sat, 08 Sep 2018 12:04:00: #1 tags after filtering in treatment: 33331393 INFO @ Sat, 08 Sep 2018 12:04:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:04:00: #1 finished! INFO @ Sat, 08 Sep 2018 12:04:00: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:04:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:04:02: #2 number of paired peaks: 61 WARNING @ Sat, 08 Sep 2018 12:04:02: Too few paired peaks (61) 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 12:04:02: Process for pairing-model is terminated! cat: SRX2973398.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2973398.10_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 `SRX2973398.10_*.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 `SRX2973398.10_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 @ Sat, 08 Sep 2018 12:04:05: 29000000 INFO @ Sat, 08 Sep 2018 12:04:08: 31000000 INFO @ Sat, 08 Sep 2018 12:04:14: 30000000 INFO @ Sat, 08 Sep 2018 12:04:16: 32000000 INFO @ Sat, 08 Sep 2018 12:04:22: 31000000 INFO @ Sat, 08 Sep 2018 12:04:24: 33000000 INFO @ Sat, 08 Sep 2018 12:04:27: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:04:27: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:04:27: #1 total tags in treatment: 33331393 INFO @ Sat, 08 Sep 2018 12:04:27: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:04:27: #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 12:04:28: #1 tags after filtering in treatment: 33331393 INFO @ Sat, 08 Sep 2018 12:04:28: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:04:28: #1 finished! INFO @ Sat, 08 Sep 2018 12:04:28: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:04:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:04:29: 32000000 INFO @ Sat, 08 Sep 2018 12:04:30: #2 number of paired peaks: 61 WARNING @ Sat, 08 Sep 2018 12:04:30: Too few paired peaks (61) 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 12:04:30: Process for pairing-model is terminated! cat: SRX2973398.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2973398.05_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 `SRX2973398.05_*.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 `SRX2973398.05_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 12:04:36: 33000000 INFO @ Sat, 08 Sep 2018 12:04:39: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:04:39: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:04:39: #1 total tags in treatment: 33331393 INFO @ Sat, 08 Sep 2018 12:04:39: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:04:39: #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 12:04:40: #1 tags after filtering in treatment: 33331393 INFO @ Sat, 08 Sep 2018 12:04:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:04:40: #1 finished! INFO @ Sat, 08 Sep 2018 12:04:40: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:04:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:04:42: #2 number of paired peaks: 61 WARNING @ Sat, 08 Sep 2018 12:04:42: Too few paired peaks (61) 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 12:04:42: Process for pairing-model is terminated! cat: SRX2973398.20_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 `SRX2973398.20_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 `SRX2973398.20_*.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 `SRX2973398.20_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。