Job ID = 10714365 sra ファイルのダウンロード中... Completed: 1783058K bytes transferred in 81 seconds (179520K 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 35206966 spots for /home/okishinya/chipatlas/results/ce10/SRX2965746/SRR5766331.sra Written 35206966 spots for /home/okishinya/chipatlas/results/ce10/SRX2965746/SRR5766331.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: 00:18:10 35206966 reads; of these: 35206966 (100.00%) were unpaired; of these: 2311548 (6.57%) aligned 0 times 27522313 (78.17%) aligned exactly 1 time 5373105 (15.26%) aligned >1 times 93.43% overall alignment rate Time searching: 00:18:11 Overall time: 00:18:11 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] 5963661 / 32895418 = 0.1813 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 12:59:42: # Command line: callpeak -t SRX2965746.bam -f BAM -g ce -n SRX2965746.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2965746.05 # format = BAM # ChIP-seq file = ['SRX2965746.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 12:59:42: # Command line: callpeak -t SRX2965746.bam -f BAM -g ce -n SRX2965746.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2965746.10 # format = BAM # ChIP-seq file = ['SRX2965746.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 12:59:42: # Command line: callpeak -t SRX2965746.bam -f BAM -g ce -n SRX2965746.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2965746.20 # format = BAM # ChIP-seq file = ['SRX2965746.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 12:59:42: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:59:42: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:59:42: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:59:42: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:59:42: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:59:42: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:59:50: 1000000 INFO @ Sun, 03 Jun 2018 12:59:50: 1000000 INFO @ Sun, 03 Jun 2018 12:59:50: 1000000 INFO @ Sun, 03 Jun 2018 12:59:58: 2000000 INFO @ Sun, 03 Jun 2018 12:59:58: 2000000 INFO @ Sun, 03 Jun 2018 12:59:58: 2000000 INFO @ Sun, 03 Jun 2018 13:00:06: 3000000 INFO @ Sun, 03 Jun 2018 13:00:06: 3000000 INFO @ Sun, 03 Jun 2018 13:00:06: 3000000 INFO @ Sun, 03 Jun 2018 13:00:14: 4000000 INFO @ Sun, 03 Jun 2018 13:00:14: 4000000 INFO @ Sun, 03 Jun 2018 13:00:14: 4000000 INFO @ Sun, 03 Jun 2018 13:00:22: 5000000 INFO @ Sun, 03 Jun 2018 13:00:23: 5000000 INFO @ Sun, 03 Jun 2018 13:00:23: 5000000 INFO @ Sun, 03 Jun 2018 13:00:30: 6000000 INFO @ Sun, 03 Jun 2018 13:00:31: 6000000 INFO @ Sun, 03 Jun 2018 13:00:31: 6000000 INFO @ Sun, 03 Jun 2018 13:00:38: 7000000 INFO @ Sun, 03 Jun 2018 13:00:39: 7000000 INFO @ Sun, 03 Jun 2018 13:00:39: 7000000 INFO @ Sun, 03 Jun 2018 13:00:47: 8000000 INFO @ Sun, 03 Jun 2018 13:00:47: 8000000 INFO @ Sun, 03 Jun 2018 13:00:47: 8000000 INFO @ Sun, 03 Jun 2018 13:00:55: 9000000 INFO @ Sun, 03 Jun 2018 13:00:55: 9000000 INFO @ Sun, 03 Jun 2018 13:00:55: 9000000 INFO @ Sun, 03 Jun 2018 13:01:03: 10000000 INFO @ Sun, 03 Jun 2018 13:01:03: 10000000 INFO @ Sun, 03 Jun 2018 13:01:03: 10000000 INFO @ Sun, 03 Jun 2018 13:01:11: 11000000 INFO @ Sun, 03 Jun 2018 13:01:11: 11000000 INFO @ Sun, 03 Jun 2018 13:01:12: 11000000 INFO @ Sun, 03 Jun 2018 13:01:19: 12000000 INFO @ Sun, 03 Jun 2018 13:01:20: 12000000 INFO @ Sun, 03 Jun 2018 13:01:20: 12000000 INFO @ Sun, 03 Jun 2018 13:01:27: 13000000 INFO @ Sun, 03 Jun 2018 13:01:28: 13000000 INFO @ Sun, 03 Jun 2018 13:01:28: 13000000 INFO @ Sun, 03 Jun 2018 13:01:35: 14000000 INFO @ Sun, 03 Jun 2018 13:01:36: 14000000 INFO @ Sun, 03 Jun 2018 13:01:36: 14000000 INFO @ Sun, 03 Jun 2018 13:01:43: 15000000 INFO @ Sun, 03 Jun 2018 13:01:44: 15000000 INFO @ Sun, 03 Jun 2018 13:01:45: 15000000 INFO @ Sun, 03 Jun 2018 13:01:51: 16000000 INFO @ Sun, 03 Jun 2018 13:01:52: 16000000 INFO @ Sun, 03 Jun 2018 13:01:53: 16000000 INFO @ Sun, 03 Jun 2018 13:01:59: 17000000 INFO @ Sun, 03 Jun 2018 13:02:01: 17000000 INFO @ Sun, 03 Jun 2018 13:02:02: 17000000 INFO @ Sun, 03 Jun 2018 13:02:07: 18000000 INFO @ Sun, 03 Jun 2018 13:02:09: 18000000 INFO @ Sun, 03 Jun 2018 13:02:10: 18000000 INFO @ Sun, 03 Jun 2018 13:02:15: 19000000 INFO @ Sun, 03 Jun 2018 13:02:18: 19000000 INFO @ Sun, 03 Jun 2018 13:02:18: 19000000 INFO @ Sun, 03 Jun 2018 13:02:23: 20000000 INFO @ Sun, 03 Jun 2018 13:02:26: 20000000 INFO @ Sun, 03 Jun 2018 13:02:27: 20000000 INFO @ Sun, 03 Jun 2018 13:02:31: 21000000 INFO @ Sun, 03 Jun 2018 13:02:34: 21000000 INFO @ Sun, 03 Jun 2018 13:02:35: 21000000 INFO @ Sun, 03 Jun 2018 13:02:39: 22000000 INFO @ Sun, 03 Jun 2018 13:02:43: 22000000 INFO @ Sun, 03 Jun 2018 13:02:44: 22000000 INFO @ Sun, 03 Jun 2018 13:02:48: 23000000 INFO @ Sun, 03 Jun 2018 13:02:51: 23000000 INFO @ Sun, 03 Jun 2018 13:02:52: 23000000 INFO @ Sun, 03 Jun 2018 13:02:56: 24000000 INFO @ Sun, 03 Jun 2018 13:03:00: 24000000 INFO @ Sun, 03 Jun 2018 13:03:00: 24000000 INFO @ Sun, 03 Jun 2018 13:03:04: 25000000 INFO @ Sun, 03 Jun 2018 13:03:08: 25000000 INFO @ Sun, 03 Jun 2018 13:03:09: 25000000 INFO @ Sun, 03 Jun 2018 13:03:12: 26000000 INFO @ Sun, 03 Jun 2018 13:03:17: 26000000 INFO @ Sun, 03 Jun 2018 13:03:17: 26000000 INFO @ Sun, 03 Jun 2018 13:03:19: #1 tag size is determined as 101 bps INFO @ Sun, 03 Jun 2018 13:03:19: #1 tag size = 101 INFO @ Sun, 03 Jun 2018 13:03:19: #1 total tags in treatment: 26931757 INFO @ Sun, 03 Jun 2018 13:03:19: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 13:03:19: #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 13:03:20: #1 tags after filtering in treatment: 26931757 INFO @ Sun, 03 Jun 2018 13:03:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 13:03:20: #1 finished! INFO @ Sun, 03 Jun 2018 13:03:20: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 13:03:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 13:03:22: #2 number of paired peaks: 87 WARNING @ Sun, 03 Jun 2018 13:03:22: Too few paired peaks (87) 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 13:03:22: Process for pairing-model is terminated! cat: SRX2965746.20_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 `SRX2965746.20_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 `SRX2965746.20_*.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 `SRX2965746.20_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 13:03:24: #1 tag size is determined as 101 bps INFO @ Sun, 03 Jun 2018 13:03:24: #1 tag size = 101 INFO @ Sun, 03 Jun 2018 13:03:24: #1 total tags in treatment: 26931757 INFO @ Sun, 03 Jun 2018 13:03:24: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 13:03:24: #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 13:03:25: #1 tags after filtering in treatment: 26931757 INFO @ Sun, 03 Jun 2018 13:03:25: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 13:03:25: #1 finished! INFO @ Sun, 03 Jun 2018 13:03:25: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 13:03:25: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 13:03:25: #1 tag size is determined as 101 bps INFO @ Sun, 03 Jun 2018 13:03:25: #1 tag size = 101 INFO @ Sun, 03 Jun 2018 13:03:25: #1 total tags in treatment: 26931757 INFO @ Sun, 03 Jun 2018 13:03:25: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 13:03:25: #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 13:03:26: #1 tags after filtering in treatment: 26931757 INFO @ Sun, 03 Jun 2018 13:03:26: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 13:03:26: #1 finished! INFO @ Sun, 03 Jun 2018 13:03:26: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 13:03:26: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 13:03:27: #2 number of paired peaks: 87 WARNING @ Sun, 03 Jun 2018 13:03:27: Too few paired peaks (87) 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 13:03:27: Process for pairing-model is terminated! cat: SRX2965746.10_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 `SRX2965746.10_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 `SRX2965746.10_*.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 `SRX2965746.10_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 13:03:28: #2 number of paired peaks: 87 WARNING @ Sun, 03 Jun 2018 13:03:28: Too few paired peaks (87) 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 13:03:28: Process for pairing-model is terminated! cat: SRX2965746.05_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 `SRX2965746.05_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 `SRX2965746.05_*.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 `SRX2965746.05_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。