Job ID = 10924596 sra ファイルのダウンロード中... Completed: 1509314K bytes transferred in 51 seconds (238825K 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 38312494 spots for /home/okishinya/chipatlas/results/ce10/SRX4200543/SRR7298009.sra Written 38312494 spots for /home/okishinya/chipatlas/results/ce10/SRX4200543/SRR7298009.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: 00:14:48 38312494 reads; of these: 38312494 (100.00%) were unpaired; of these: 702810 (1.83%) aligned 0 times 31470047 (82.14%) aligned exactly 1 time 6139637 (16.03%) aligned >1 times 98.17% overall alignment rate Time searching: 00:14:48 Overall time: 00:14:48 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] 13012832 / 37609684 = 0.3460 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 10:53:37: # Command line: callpeak -t SRX4200543.bam -f BAM -g ce -n SRX4200543.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4200543.05 # format = BAM # ChIP-seq file = ['SRX4200543.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 10:53:37: # Command line: callpeak -t SRX4200543.bam -f BAM -g ce -n SRX4200543.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4200543.10 # format = BAM # ChIP-seq file = ['SRX4200543.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 10:53:37: # Command line: callpeak -t SRX4200543.bam -f BAM -g ce -n SRX4200543.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4200543.20 # format = BAM # ChIP-seq file = ['SRX4200543.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 10:53:37: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:53:37: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:53:37: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:53:37: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:53:37: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:53:37: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:53:45: 1000000 INFO @ Mon, 06 Aug 2018 10:53:45: 1000000 INFO @ Mon, 06 Aug 2018 10:53:45: 1000000 INFO @ Mon, 06 Aug 2018 10:53:52: 2000000 INFO @ Mon, 06 Aug 2018 10:53:52: 2000000 INFO @ Mon, 06 Aug 2018 10:53:53: 2000000 INFO @ Mon, 06 Aug 2018 10:54:00: 3000000 INFO @ Mon, 06 Aug 2018 10:54:00: 3000000 INFO @ Mon, 06 Aug 2018 10:54:00: 3000000 INFO @ Mon, 06 Aug 2018 10:54:07: 4000000 INFO @ Mon, 06 Aug 2018 10:54:08: 4000000 INFO @ Mon, 06 Aug 2018 10:54:08: 4000000 INFO @ Mon, 06 Aug 2018 10:54:15: 5000000 INFO @ Mon, 06 Aug 2018 10:54:15: 5000000 INFO @ Mon, 06 Aug 2018 10:54:15: 5000000 INFO @ Mon, 06 Aug 2018 10:54:23: 6000000 INFO @ Mon, 06 Aug 2018 10:54:23: 6000000 INFO @ Mon, 06 Aug 2018 10:54:23: 6000000 INFO @ Mon, 06 Aug 2018 10:54:30: 7000000 INFO @ Mon, 06 Aug 2018 10:54:31: 7000000 INFO @ Mon, 06 Aug 2018 10:54:31: 7000000 INFO @ Mon, 06 Aug 2018 10:54:38: 8000000 INFO @ Mon, 06 Aug 2018 10:54:38: 8000000 INFO @ Mon, 06 Aug 2018 10:54:39: 8000000 INFO @ Mon, 06 Aug 2018 10:54:46: 9000000 INFO @ Mon, 06 Aug 2018 10:54:46: 9000000 INFO @ Mon, 06 Aug 2018 10:54:47: 9000000 INFO @ Mon, 06 Aug 2018 10:54:53: 10000000 INFO @ Mon, 06 Aug 2018 10:54:54: 10000000 INFO @ Mon, 06 Aug 2018 10:54:55: 10000000 INFO @ Mon, 06 Aug 2018 10:55:01: 11000000 INFO @ Mon, 06 Aug 2018 10:55:02: 11000000 INFO @ Mon, 06 Aug 2018 10:55:03: 11000000 INFO @ Mon, 06 Aug 2018 10:55:08: 12000000 INFO @ Mon, 06 Aug 2018 10:55:10: 12000000 INFO @ Mon, 06 Aug 2018 10:55:11: 12000000 INFO @ Mon, 06 Aug 2018 10:55:16: 13000000 INFO @ Mon, 06 Aug 2018 10:55:18: 13000000 INFO @ Mon, 06 Aug 2018 10:55:18: 13000000 INFO @ Mon, 06 Aug 2018 10:55:23: 14000000 INFO @ Mon, 06 Aug 2018 10:55:25: 14000000 INFO @ Mon, 06 Aug 2018 10:55:26: 14000000 INFO @ Mon, 06 Aug 2018 10:55:30: 15000000 INFO @ Mon, 06 Aug 2018 10:55:33: 15000000 INFO @ Mon, 06 Aug 2018 10:55:34: 15000000 INFO @ Mon, 06 Aug 2018 10:55:38: 16000000 INFO @ Mon, 06 Aug 2018 10:55:41: 16000000 INFO @ Mon, 06 Aug 2018 10:55:42: 16000000 INFO @ Mon, 06 Aug 2018 10:55:45: 17000000 INFO @ Mon, 06 Aug 2018 10:55:49: 17000000 INFO @ Mon, 06 Aug 2018 10:55:50: 17000000 INFO @ Mon, 06 Aug 2018 10:55:53: 18000000 INFO @ Mon, 06 Aug 2018 10:55:57: 18000000 INFO @ Mon, 06 Aug 2018 10:55:58: 18000000 INFO @ Mon, 06 Aug 2018 10:56:00: 19000000 INFO @ Mon, 06 Aug 2018 10:56:05: 19000000 INFO @ Mon, 06 Aug 2018 10:56:06: 19000000 INFO @ Mon, 06 Aug 2018 10:56:07: 20000000 INFO @ Mon, 06 Aug 2018 10:56:13: 20000000 INFO @ Mon, 06 Aug 2018 10:56:14: 20000000 INFO @ Mon, 06 Aug 2018 10:56:15: 21000000 INFO @ Mon, 06 Aug 2018 10:56:21: 21000000 INFO @ Mon, 06 Aug 2018 10:56:22: 21000000 INFO @ Mon, 06 Aug 2018 10:56:22: 22000000 INFO @ Mon, 06 Aug 2018 10:56:28: 22000000 INFO @ Mon, 06 Aug 2018 10:56:30: 23000000 INFO @ Mon, 06 Aug 2018 10:56:30: 22000000 INFO @ Mon, 06 Aug 2018 10:56:36: 23000000 INFO @ Mon, 06 Aug 2018 10:56:37: 24000000 INFO @ Mon, 06 Aug 2018 10:56:38: 23000000 INFO @ Mon, 06 Aug 2018 10:56:42: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:56:42: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:56:42: #1 total tags in treatment: 24596852 INFO @ Mon, 06 Aug 2018 10:56:42: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:56:42: #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 10:56:42: #1 tags after filtering in treatment: 24596852 INFO @ Mon, 06 Aug 2018 10:56:42: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:56:42: #1 finished! INFO @ Mon, 06 Aug 2018 10:56:42: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:56:42: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:56:44: #2 number of paired peaks: 10 WARNING @ Mon, 06 Aug 2018 10:56:44: Too few paired peaks (10) 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 10:56:44: Process for pairing-model is terminated! cat: SRX4200543.05_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 `SRX4200543.05_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 `SRX4200543.05_*.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 `SRX4200543.05_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 @ Mon, 06 Aug 2018 10:56:44: 24000000 INFO @ Mon, 06 Aug 2018 10:56:46: 24000000 INFO @ Mon, 06 Aug 2018 10:56:49: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:56:49: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:56:49: #1 total tags in treatment: 24596852 INFO @ Mon, 06 Aug 2018 10:56:49: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:56:49: #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 10:56:50: #1 tags after filtering in treatment: 24596852 INFO @ Mon, 06 Aug 2018 10:56:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:56:50: #1 finished! INFO @ Mon, 06 Aug 2018 10:56:50: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:56:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:56:51: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:56:51: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:56:51: #1 total tags in treatment: 24596852 INFO @ Mon, 06 Aug 2018 10:56:51: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:56:51: #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 10:56:51: #2 number of paired peaks: 10 WARNING @ Mon, 06 Aug 2018 10:56:51: Too few paired peaks (10) 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 10:56:51: Process for pairing-model is terminated! cat: SRX4200543.10_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 `SRX4200543.10_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 `SRX4200543.10_*.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 `SRX4200543.10_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 10:56:51: #1 tags after filtering in treatment: 24596852 INFO @ Mon, 06 Aug 2018 10:56:51: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:56:51: #1 finished! INFO @ Mon, 06 Aug 2018 10:56:51: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:56:51: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:56:53: #2 number of paired peaks: 10 WARNING @ Mon, 06 Aug 2018 10:56:53: Too few paired peaks (10) 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 10:56:53: Process for pairing-model is terminated! cat: SRX4200543.20_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 `SRX4200543.20_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 `SRX4200543.20_*.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 `SRX4200543.20_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。