Job ID = 11170847 sra ファイルのダウンロード中... Completed: 1012337K bytes transferred in 100 seconds (82633K 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 38102325 spots for /home/okishinya/chipatlas/results/ce10/SRX3583347/SRR6494003.sra Written 38102325 spots for /home/okishinya/chipatlas/results/ce10/SRX3583347/SRR6494003.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: 00:14:40 38102325 reads; of these: 38102325 (100.00%) were unpaired; of these: 1221641 (3.21%) aligned 0 times 30903647 (81.11%) aligned exactly 1 time 5977037 (15.69%) aligned >1 times 96.79% overall alignment rate Time searching: 00:14:40 Overall time: 00:14:40 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] 7703848 / 36880684 = 0.2089 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 11:52:29: # Command line: callpeak -t SRX3583347.bam -f BAM -g ce -n SRX3583347.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3583347.10 # format = BAM # ChIP-seq file = ['SRX3583347.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 11:52:29: # Command line: callpeak -t SRX3583347.bam -f BAM -g ce -n SRX3583347.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3583347.20 # format = BAM # ChIP-seq file = ['SRX3583347.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 11:52:29: # Command line: callpeak -t SRX3583347.bam -f BAM -g ce -n SRX3583347.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3583347.05 # format = BAM # ChIP-seq file = ['SRX3583347.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 11:52:29: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:52:29: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:52:29: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:52:29: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:52:29: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:52:29: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:52:36: 1000000 INFO @ Sat, 08 Sep 2018 11:52:37: 1000000 INFO @ Sat, 08 Sep 2018 11:52:37: 1000000 INFO @ Sat, 08 Sep 2018 11:52:44: 2000000 INFO @ Sat, 08 Sep 2018 11:52:44: 2000000 INFO @ Sat, 08 Sep 2018 11:52:44: 2000000 INFO @ Sat, 08 Sep 2018 11:52:51: 3000000 INFO @ Sat, 08 Sep 2018 11:52:51: 3000000 INFO @ Sat, 08 Sep 2018 11:52:52: 3000000 INFO @ Sat, 08 Sep 2018 11:52:58: 4000000 INFO @ Sat, 08 Sep 2018 11:52:59: 4000000 INFO @ Sat, 08 Sep 2018 11:52:59: 4000000 INFO @ Sat, 08 Sep 2018 11:53:06: 5000000 INFO @ Sat, 08 Sep 2018 11:53:06: 5000000 INFO @ Sat, 08 Sep 2018 11:53:07: 5000000 INFO @ Sat, 08 Sep 2018 11:53:13: 6000000 INFO @ Sat, 08 Sep 2018 11:53:14: 6000000 INFO @ Sat, 08 Sep 2018 11:53:15: 6000000 INFO @ Sat, 08 Sep 2018 11:53:20: 7000000 INFO @ Sat, 08 Sep 2018 11:53:21: 7000000 INFO @ Sat, 08 Sep 2018 11:53:23: 7000000 INFO @ Sat, 08 Sep 2018 11:53:28: 8000000 INFO @ Sat, 08 Sep 2018 11:53:28: 8000000 INFO @ Sat, 08 Sep 2018 11:53:30: 8000000 INFO @ Sat, 08 Sep 2018 11:53:35: 9000000 INFO @ Sat, 08 Sep 2018 11:53:36: 9000000 INFO @ Sat, 08 Sep 2018 11:53:38: 9000000 INFO @ Sat, 08 Sep 2018 11:53:43: 10000000 INFO @ Sat, 08 Sep 2018 11:53:43: 10000000 INFO @ Sat, 08 Sep 2018 11:53:46: 10000000 INFO @ Sat, 08 Sep 2018 11:53:50: 11000000 INFO @ Sat, 08 Sep 2018 11:53:50: 11000000 INFO @ Sat, 08 Sep 2018 11:53:53: 11000000 INFO @ Sat, 08 Sep 2018 11:53:57: 12000000 INFO @ Sat, 08 Sep 2018 11:53:57: 12000000 INFO @ Sat, 08 Sep 2018 11:54:01: 12000000 INFO @ Sat, 08 Sep 2018 11:54:04: 13000000 INFO @ Sat, 08 Sep 2018 11:54:05: 13000000 INFO @ Sat, 08 Sep 2018 11:54:09: 13000000 INFO @ Sat, 08 Sep 2018 11:54:12: 14000000 INFO @ Sat, 08 Sep 2018 11:54:12: 14000000 INFO @ Sat, 08 Sep 2018 11:54:16: 14000000 INFO @ Sat, 08 Sep 2018 11:54:19: 15000000 INFO @ Sat, 08 Sep 2018 11:54:19: 15000000 INFO @ Sat, 08 Sep 2018 11:54:24: 15000000 INFO @ Sat, 08 Sep 2018 11:54:26: 16000000 INFO @ Sat, 08 Sep 2018 11:54:26: 16000000 INFO @ Sat, 08 Sep 2018 11:54:31: 16000000 INFO @ Sat, 08 Sep 2018 11:54:33: 17000000 INFO @ Sat, 08 Sep 2018 11:54:34: 17000000 INFO @ Sat, 08 Sep 2018 11:54:39: 17000000 INFO @ Sat, 08 Sep 2018 11:54:41: 18000000 INFO @ Sat, 08 Sep 2018 11:54:41: 18000000 INFO @ Sat, 08 Sep 2018 11:54:47: 18000000 INFO @ Sat, 08 Sep 2018 11:54:48: 19000000 INFO @ Sat, 08 Sep 2018 11:54:48: 19000000 INFO @ Sat, 08 Sep 2018 11:54:54: 19000000 INFO @ Sat, 08 Sep 2018 11:54:55: 20000000 INFO @ Sat, 08 Sep 2018 11:54:55: 20000000 INFO @ Sat, 08 Sep 2018 11:55:02: 20000000 INFO @ Sat, 08 Sep 2018 11:55:02: 21000000 INFO @ Sat, 08 Sep 2018 11:55:02: 21000000 INFO @ Sat, 08 Sep 2018 11:55:09: 21000000 INFO @ Sat, 08 Sep 2018 11:55:09: 22000000 INFO @ Sat, 08 Sep 2018 11:55:10: 22000000 INFO @ Sat, 08 Sep 2018 11:55:16: 23000000 INFO @ Sat, 08 Sep 2018 11:55:17: 22000000 INFO @ Sat, 08 Sep 2018 11:55:17: 23000000 INFO @ Sat, 08 Sep 2018 11:55:24: 24000000 INFO @ Sat, 08 Sep 2018 11:55:24: 24000000 INFO @ Sat, 08 Sep 2018 11:55:24: 23000000 INFO @ Sat, 08 Sep 2018 11:55:31: 25000000 INFO @ Sat, 08 Sep 2018 11:55:31: 25000000 INFO @ Sat, 08 Sep 2018 11:55:32: 24000000 INFO @ Sat, 08 Sep 2018 11:55:38: 26000000 INFO @ Sat, 08 Sep 2018 11:55:38: 26000000 INFO @ Sat, 08 Sep 2018 11:55:39: 25000000 INFO @ Sat, 08 Sep 2018 11:55:45: 27000000 INFO @ Sat, 08 Sep 2018 11:55:46: 27000000 INFO @ Sat, 08 Sep 2018 11:55:47: 26000000 INFO @ Sat, 08 Sep 2018 11:55:52: 28000000 INFO @ Sat, 08 Sep 2018 11:55:53: 28000000 INFO @ Sat, 08 Sep 2018 11:55:54: 27000000 INFO @ Sat, 08 Sep 2018 11:56:00: 29000000 INFO @ Sat, 08 Sep 2018 11:56:00: 29000000 INFO @ Sat, 08 Sep 2018 11:56:01: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:56:01: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:56:01: #1 total tags in treatment: 29176836 INFO @ Sat, 08 Sep 2018 11:56:01: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:56:01: #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 11:56:01: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:56:01: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:56:01: #1 total tags in treatment: 29176836 INFO @ Sat, 08 Sep 2018 11:56:01: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:56:01: #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 11:56:02: #1 tags after filtering in treatment: 29176836 INFO @ Sat, 08 Sep 2018 11:56:02: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:56:02: #1 finished! INFO @ Sat, 08 Sep 2018 11:56:02: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:56:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:56:02: 28000000 INFO @ Sat, 08 Sep 2018 11:56:02: #1 tags after filtering in treatment: 29176836 INFO @ Sat, 08 Sep 2018 11:56:02: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:56:02: #1 finished! INFO @ Sat, 08 Sep 2018 11:56:02: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:56:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:56:04: #2 number of paired peaks: 71 WARNING @ Sat, 08 Sep 2018 11:56:04: Too few paired peaks (71) 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 11:56:04: Process for pairing-model is terminated! cat: SRX3583347.10_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 `SRX3583347.10_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 `SRX3583347.10_*.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 `SRX3583347.10_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 11:56:04: #2 number of paired peaks: 71 WARNING @ Sat, 08 Sep 2018 11:56:04: Too few paired peaks (71) 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 11:56:04: Process for pairing-model is terminated! cat: SRX3583347.20_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 `SRX3583347.20_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 `SRX3583347.20_*.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 `SRX3583347.20_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 @ Sat, 08 Sep 2018 11:56:09: 29000000 INFO @ Sat, 08 Sep 2018 11:56:10: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:56:10: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:56:10: #1 total tags in treatment: 29176836 INFO @ Sat, 08 Sep 2018 11:56:10: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:56:10: #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 11:56:11: #1 tags after filtering in treatment: 29176836 INFO @ Sat, 08 Sep 2018 11:56:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:56:11: #1 finished! INFO @ Sat, 08 Sep 2018 11:56:11: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:56:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:56:13: #2 number of paired peaks: 71 WARNING @ Sat, 08 Sep 2018 11:56:13: Too few paired peaks (71) 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 11:56:13: Process for pairing-model is terminated! cat: SRX3583347.05_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 `SRX3583347.05_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 `SRX3583347.05_*.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 `SRX3583347.05_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。