Job ID = 10924586 sra ファイルのダウンロード中... Completed: 1268231K bytes transferred in 50 seconds (206625K 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 32258420 spots for /home/okishinya/chipatlas/results/ce10/SRX4200533/SRR7297999.sra Written 32258420 spots for /home/okishinya/chipatlas/results/ce10/SRX4200533/SRR7297999.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: 00:12:07 32258420 reads; of these: 32258420 (100.00%) were unpaired; of these: 96407 (0.30%) aligned 0 times 27747607 (86.02%) aligned exactly 1 time 4414406 (13.68%) aligned >1 times 99.70% overall alignment rate Time searching: 00:12:07 Overall time: 00:12:07 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] 12098254 / 32162013 = 0.3762 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 @ Mon, 06 Aug 2018 10:48:31: # Command line: callpeak -t SRX4200533.bam -f BAM -g ce -n SRX4200533.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4200533.20 # format = BAM # ChIP-seq file = ['SRX4200533.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 @ Mon, 06 Aug 2018 10:48:31: # Command line: callpeak -t SRX4200533.bam -f BAM -g ce -n SRX4200533.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4200533.05 # format = BAM # ChIP-seq file = ['SRX4200533.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 @ Mon, 06 Aug 2018 10:48:31: # Command line: callpeak -t SRX4200533.bam -f BAM -g ce -n SRX4200533.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4200533.10 # format = BAM # ChIP-seq file = ['SRX4200533.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 @ Mon, 06 Aug 2018 10:48:31: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:48:31: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:48:31: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:48:31: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:48:31: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:48:31: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:48:38: 1000000 INFO @ Mon, 06 Aug 2018 10:48:38: 1000000 INFO @ Mon, 06 Aug 2018 10:48:38: 1000000 INFO @ Mon, 06 Aug 2018 10:48:45: 2000000 INFO @ Mon, 06 Aug 2018 10:48:45: 2000000 INFO @ Mon, 06 Aug 2018 10:48:45: 2000000 INFO @ Mon, 06 Aug 2018 10:48:52: 3000000 INFO @ Mon, 06 Aug 2018 10:48:52: 3000000 INFO @ Mon, 06 Aug 2018 10:48:52: 3000000 INFO @ Mon, 06 Aug 2018 10:48:58: 4000000 INFO @ Mon, 06 Aug 2018 10:48:59: 4000000 INFO @ Mon, 06 Aug 2018 10:48:59: 4000000 INFO @ Mon, 06 Aug 2018 10:49:05: 5000000 INFO @ Mon, 06 Aug 2018 10:49:06: 5000000 INFO @ Mon, 06 Aug 2018 10:49:06: 5000000 INFO @ Mon, 06 Aug 2018 10:49:12: 6000000 INFO @ Mon, 06 Aug 2018 10:49:13: 6000000 INFO @ Mon, 06 Aug 2018 10:49:14: 6000000 INFO @ Mon, 06 Aug 2018 10:49:18: 7000000 INFO @ Mon, 06 Aug 2018 10:49:20: 7000000 INFO @ Mon, 06 Aug 2018 10:49:21: 7000000 INFO @ Mon, 06 Aug 2018 10:49:25: 8000000 INFO @ Mon, 06 Aug 2018 10:49:27: 8000000 INFO @ Mon, 06 Aug 2018 10:49:28: 8000000 INFO @ Mon, 06 Aug 2018 10:49:32: 9000000 INFO @ Mon, 06 Aug 2018 10:49:34: 9000000 INFO @ Mon, 06 Aug 2018 10:49:35: 9000000 INFO @ Mon, 06 Aug 2018 10:49:38: 10000000 INFO @ Mon, 06 Aug 2018 10:49:41: 10000000 INFO @ Mon, 06 Aug 2018 10:49:43: 10000000 INFO @ Mon, 06 Aug 2018 10:49:45: 11000000 INFO @ Mon, 06 Aug 2018 10:49:48: 11000000 INFO @ Mon, 06 Aug 2018 10:49:50: 11000000 INFO @ Mon, 06 Aug 2018 10:49:52: 12000000 INFO @ Mon, 06 Aug 2018 10:49:55: 12000000 INFO @ Mon, 06 Aug 2018 10:49:57: 12000000 INFO @ Mon, 06 Aug 2018 10:49:58: 13000000 INFO @ Mon, 06 Aug 2018 10:50:03: 13000000 INFO @ Mon, 06 Aug 2018 10:50:04: 13000000 INFO @ Mon, 06 Aug 2018 10:50:05: 14000000 INFO @ Mon, 06 Aug 2018 10:50:10: 14000000 INFO @ Mon, 06 Aug 2018 10:50:12: 14000000 INFO @ Mon, 06 Aug 2018 10:50:12: 15000000 INFO @ Mon, 06 Aug 2018 10:50:17: 15000000 INFO @ Mon, 06 Aug 2018 10:50:19: 16000000 INFO @ Mon, 06 Aug 2018 10:50:19: 15000000 INFO @ Mon, 06 Aug 2018 10:50:24: 16000000 INFO @ Mon, 06 Aug 2018 10:50:25: 17000000 INFO @ Mon, 06 Aug 2018 10:50:26: 16000000 INFO @ Mon, 06 Aug 2018 10:50:31: 17000000 INFO @ Mon, 06 Aug 2018 10:50:32: 18000000 INFO @ Mon, 06 Aug 2018 10:50:33: 17000000 INFO @ Mon, 06 Aug 2018 10:50:38: 18000000 INFO @ Mon, 06 Aug 2018 10:50:39: 19000000 INFO @ Mon, 06 Aug 2018 10:50:41: 18000000 INFO @ Mon, 06 Aug 2018 10:50:45: 19000000 INFO @ Mon, 06 Aug 2018 10:50:45: 20000000 INFO @ Mon, 06 Aug 2018 10:50:46: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:50:46: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:50:46: #1 total tags in treatment: 20063759 INFO @ Mon, 06 Aug 2018 10:50:46: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:50:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Aug 2018 10:50:46: #1 tags after filtering in treatment: 20063759 INFO @ Mon, 06 Aug 2018 10:50:46: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:50:46: #1 finished! INFO @ Mon, 06 Aug 2018 10:50:46: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:50:46: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:50:48: #2 number of paired peaks: 11 WARNING @ Mon, 06 Aug 2018 10:50:48: Too few paired peaks (11) 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 @ Mon, 06 Aug 2018 10:50:48: Process for pairing-model is terminated! cat: SRX4200533.10_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 `SRX4200533.10_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 `SRX4200533.10_*.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 `SRX4200533.10_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 @ Mon, 06 Aug 2018 10:50:48: 19000000 INFO @ Mon, 06 Aug 2018 10:50:52: 20000000 INFO @ Mon, 06 Aug 2018 10:50:53: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:50:53: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:50:53: #1 total tags in treatment: 20063759 INFO @ Mon, 06 Aug 2018 10:50:53: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:50:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Aug 2018 10:50:53: #1 tags after filtering in treatment: 20063759 INFO @ Mon, 06 Aug 2018 10:50:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:50:53: #1 finished! INFO @ Mon, 06 Aug 2018 10:50:53: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:50:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:50:54: #2 number of paired peaks: 11 WARNING @ Mon, 06 Aug 2018 10:50:54: Too few paired peaks (11) 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 @ Mon, 06 Aug 2018 10:50:54: Process for pairing-model is terminated! cat: SRX4200533.20_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 `SRX4200533.20_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 `SRX4200533.20_*.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 `SRX4200533.20_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 @ Mon, 06 Aug 2018 10:50:55: 20000000 INFO @ Mon, 06 Aug 2018 10:50:56: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:50:56: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:50:56: #1 total tags in treatment: 20063759 INFO @ Mon, 06 Aug 2018 10:50:56: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:50:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Aug 2018 10:50:56: #1 tags after filtering in treatment: 20063759 INFO @ Mon, 06 Aug 2018 10:50:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:50:56: #1 finished! INFO @ Mon, 06 Aug 2018 10:50:56: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:50:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:50:57: #2 number of paired peaks: 11 WARNING @ Mon, 06 Aug 2018 10:50:57: Too few paired peaks (11) 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 @ Mon, 06 Aug 2018 10:50:57: Process for pairing-model is terminated! cat: SRX4200533.05_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 `SRX4200533.05_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 `SRX4200533.05_*.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 `SRX4200533.05_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。