Job ID = 10924581 sra ファイルのダウンロード中... Completed: 1342530K bytes transferred in 44 seconds (246808K 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 33988202 spots for /home/okishinya/chipatlas/results/ce10/SRX4200529/SRR7297995.sra Written 33988202 spots for /home/okishinya/chipatlas/results/ce10/SRX4200529/SRR7297995.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: 00:13:40 33988202 reads; of these: 33988202 (100.00%) were unpaired; of these: 105507 (0.31%) aligned 0 times 26743086 (78.68%) aligned exactly 1 time 7139609 (21.01%) aligned >1 times 99.69% overall alignment rate Time searching: 00:13:40 Overall time: 00:13:40 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] 13228566 / 33882695 = 0.3904 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 10:50:17: # Command line: callpeak -t SRX4200529.bam -f BAM -g ce -n SRX4200529.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4200529.05 # format = BAM # ChIP-seq file = ['SRX4200529.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 10:50:17: # Command line: callpeak -t SRX4200529.bam -f BAM -g ce -n SRX4200529.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4200529.10 # format = BAM # ChIP-seq file = ['SRX4200529.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 10:50:17: # Command line: callpeak -t SRX4200529.bam -f BAM -g ce -n SRX4200529.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4200529.20 # format = BAM # ChIP-seq file = ['SRX4200529.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 10:50:17: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:50:17: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:50:17: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:50:17: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:50:17: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:50:17: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:50:25: 1000000 INFO @ Mon, 06 Aug 2018 10:50:25: 1000000 INFO @ Mon, 06 Aug 2018 10:50:25: 1000000 INFO @ Mon, 06 Aug 2018 10:50:32: 2000000 INFO @ Mon, 06 Aug 2018 10:50:32: 2000000 INFO @ Mon, 06 Aug 2018 10:50:32: 2000000 INFO @ Mon, 06 Aug 2018 10:50:39: 3000000 INFO @ Mon, 06 Aug 2018 10:50:39: 3000000 INFO @ Mon, 06 Aug 2018 10:50:39: 3000000 INFO @ Mon, 06 Aug 2018 10:50:46: 4000000 INFO @ Mon, 06 Aug 2018 10:50:46: 4000000 INFO @ Mon, 06 Aug 2018 10:50:46: 4000000 INFO @ Mon, 06 Aug 2018 10:50:53: 5000000 INFO @ Mon, 06 Aug 2018 10:50:53: 5000000 INFO @ Mon, 06 Aug 2018 10:50:53: 5000000 INFO @ Mon, 06 Aug 2018 10:51:00: 6000000 INFO @ Mon, 06 Aug 2018 10:51:01: 6000000 INFO @ Mon, 06 Aug 2018 10:51:01: 6000000 INFO @ Mon, 06 Aug 2018 10:51:08: 7000000 INFO @ Mon, 06 Aug 2018 10:51:08: 7000000 INFO @ Mon, 06 Aug 2018 10:51:08: 7000000 INFO @ Mon, 06 Aug 2018 10:51:15: 8000000 INFO @ Mon, 06 Aug 2018 10:51:16: 8000000 INFO @ Mon, 06 Aug 2018 10:51:16: 8000000 INFO @ Mon, 06 Aug 2018 10:51:23: 9000000 INFO @ Mon, 06 Aug 2018 10:51:24: 9000000 INFO @ Mon, 06 Aug 2018 10:51:24: 9000000 INFO @ Mon, 06 Aug 2018 10:51:30: 10000000 INFO @ Mon, 06 Aug 2018 10:51:32: 10000000 INFO @ Mon, 06 Aug 2018 10:51:32: 10000000 INFO @ Mon, 06 Aug 2018 10:51:38: 11000000 INFO @ Mon, 06 Aug 2018 10:51:39: 11000000 INFO @ Mon, 06 Aug 2018 10:51:40: 11000000 INFO @ Mon, 06 Aug 2018 10:51:45: 12000000 INFO @ Mon, 06 Aug 2018 10:51:47: 12000000 INFO @ Mon, 06 Aug 2018 10:51:48: 12000000 INFO @ Mon, 06 Aug 2018 10:51:53: 13000000 INFO @ Mon, 06 Aug 2018 10:51:55: 13000000 INFO @ Mon, 06 Aug 2018 10:51:57: 13000000 INFO @ Mon, 06 Aug 2018 10:52:00: 14000000 INFO @ Mon, 06 Aug 2018 10:52:03: 14000000 INFO @ Mon, 06 Aug 2018 10:52:05: 14000000 INFO @ Mon, 06 Aug 2018 10:52:07: 15000000 INFO @ Mon, 06 Aug 2018 10:52:11: 15000000 INFO @ Mon, 06 Aug 2018 10:52:13: 15000000 INFO @ Mon, 06 Aug 2018 10:52:15: 16000000 INFO @ Mon, 06 Aug 2018 10:52:19: 16000000 INFO @ Mon, 06 Aug 2018 10:52:21: 16000000 INFO @ Mon, 06 Aug 2018 10:52:22: 17000000 INFO @ Mon, 06 Aug 2018 10:52:27: 17000000 INFO @ Mon, 06 Aug 2018 10:52:29: 17000000 INFO @ Mon, 06 Aug 2018 10:52:29: 18000000 INFO @ Mon, 06 Aug 2018 10:52:34: 18000000 INFO @ Mon, 06 Aug 2018 10:52:36: 18000000 INFO @ Mon, 06 Aug 2018 10:52:36: 19000000 INFO @ Mon, 06 Aug 2018 10:52:41: 19000000 INFO @ Mon, 06 Aug 2018 10:52:43: 20000000 INFO @ Mon, 06 Aug 2018 10:52:43: 19000000 INFO @ Mon, 06 Aug 2018 10:52:47: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:52:47: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:52:47: #1 total tags in treatment: 20654129 INFO @ Mon, 06 Aug 2018 10:52:47: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:52:47: #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 10:52:48: #1 tags after filtering in treatment: 20654129 INFO @ Mon, 06 Aug 2018 10:52:48: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:52:48: #1 finished! INFO @ Mon, 06 Aug 2018 10:52:48: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:52:48: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:52:48: 20000000 INFO @ Mon, 06 Aug 2018 10:52:49: #2 number of paired peaks: 39 WARNING @ Mon, 06 Aug 2018 10:52:49: Too few paired peaks (39) 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 10:52:49: Process for pairing-model is terminated! cat: SRX4200529.05_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 `SRX4200529.05_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 `SRX4200529.05_*.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 `SRX4200529.05_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 10:52:50: 20000000 INFO @ Mon, 06 Aug 2018 10:52:53: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:52:53: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:52:53: #1 total tags in treatment: 20654129 INFO @ Mon, 06 Aug 2018 10:52:53: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:52:53: #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 10:52:53: #1 tags after filtering in treatment: 20654129 INFO @ Mon, 06 Aug 2018 10:52:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:52:53: #1 finished! INFO @ Mon, 06 Aug 2018 10:52:53: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:52:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:52:55: #2 number of paired peaks: 39 WARNING @ Mon, 06 Aug 2018 10:52:55: Too few paired peaks (39) 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 10:52:55: Process for pairing-model is terminated! cat: SRX4200529.10_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 `SRX4200529.10_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 `SRX4200529.10_*.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 `SRX4200529.10_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 10:52:55: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:52:55: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:52:55: #1 total tags in treatment: 20654129 INFO @ Mon, 06 Aug 2018 10:52:55: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:52:55: #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 10:52:55: #1 tags after filtering in treatment: 20654129 INFO @ Mon, 06 Aug 2018 10:52:55: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:52:55: #1 finished! INFO @ Mon, 06 Aug 2018 10:52:55: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:52:55: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:52:56: #2 number of paired peaks: 39 WARNING @ Mon, 06 Aug 2018 10:52:56: Too few paired peaks (39) 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 10:52:56: Process for pairing-model is terminated! cat: SRX4200529.20_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 `SRX4200529.20_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 `SRX4200529.20_*.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 `SRX4200529.20_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。