Job ID = 11170848 sra ファイルのダウンロード中... Completed: 1160301K bytes transferred in 111 seconds (85459K 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 43843727 spots for /home/okishinya/chipatlas/results/ce10/SRX3583348/SRR6494004.sra Written 43843727 spots for /home/okishinya/chipatlas/results/ce10/SRX3583348/SRR6494004.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: 00:17:05 43843727 reads; of these: 43843727 (100.00%) were unpaired; of these: 1182723 (2.70%) aligned 0 times 35715038 (81.46%) aligned exactly 1 time 6945966 (15.84%) aligned >1 times 97.30% overall alignment rate Time searching: 00:17:05 Overall time: 00:17:05 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 20 files... [bam_rmdupse_core] 7429685 / 42661004 = 0.1742 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 11:56:42: # Command line: callpeak -t SRX3583348.bam -f BAM -g ce -n SRX3583348.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3583348.10 # format = BAM # ChIP-seq file = ['SRX3583348.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 11:56:42: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:56:42: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:56:42: # Command line: callpeak -t SRX3583348.bam -f BAM -g ce -n SRX3583348.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3583348.05 # format = BAM # ChIP-seq file = ['SRX3583348.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 11:56:42: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:56:42: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:56:42: # Command line: callpeak -t SRX3583348.bam -f BAM -g ce -n SRX3583348.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3583348.20 # format = BAM # ChIP-seq file = ['SRX3583348.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 11:56:42: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:56:42: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:56:49: 1000000 INFO @ Sat, 08 Sep 2018 11:56:49: 1000000 INFO @ Sat, 08 Sep 2018 11:56:49: 1000000 INFO @ Sat, 08 Sep 2018 11:56:55: 2000000 INFO @ Sat, 08 Sep 2018 11:56:55: 2000000 INFO @ Sat, 08 Sep 2018 11:56:56: 2000000 INFO @ Sat, 08 Sep 2018 11:57:01: 3000000 INFO @ Sat, 08 Sep 2018 11:57:02: 3000000 INFO @ Sat, 08 Sep 2018 11:57:02: 3000000 INFO @ Sat, 08 Sep 2018 11:57:08: 4000000 INFO @ Sat, 08 Sep 2018 11:57:08: 4000000 INFO @ Sat, 08 Sep 2018 11:57:09: 4000000 INFO @ Sat, 08 Sep 2018 11:57:14: 5000000 INFO @ Sat, 08 Sep 2018 11:57:15: 5000000 INFO @ Sat, 08 Sep 2018 11:57:16: 5000000 INFO @ Sat, 08 Sep 2018 11:57:21: 6000000 INFO @ Sat, 08 Sep 2018 11:57:21: 6000000 INFO @ Sat, 08 Sep 2018 11:57:22: 6000000 INFO @ Sat, 08 Sep 2018 11:57:27: 7000000 INFO @ Sat, 08 Sep 2018 11:57:28: 7000000 INFO @ Sat, 08 Sep 2018 11:57:29: 7000000 INFO @ Sat, 08 Sep 2018 11:57:34: 8000000 INFO @ Sat, 08 Sep 2018 11:57:34: 8000000 INFO @ Sat, 08 Sep 2018 11:57:35: 8000000 INFO @ Sat, 08 Sep 2018 11:57:40: 9000000 INFO @ Sat, 08 Sep 2018 11:57:41: 9000000 INFO @ Sat, 08 Sep 2018 11:57:42: 9000000 INFO @ Sat, 08 Sep 2018 11:57:46: 10000000 INFO @ Sat, 08 Sep 2018 11:57:47: 10000000 INFO @ Sat, 08 Sep 2018 11:57:49: 10000000 INFO @ Sat, 08 Sep 2018 11:57:53: 11000000 INFO @ Sat, 08 Sep 2018 11:57:54: 11000000 INFO @ Sat, 08 Sep 2018 11:57:55: 11000000 INFO @ Sat, 08 Sep 2018 11:58:00: 12000000 INFO @ Sat, 08 Sep 2018 11:58:01: 12000000 INFO @ Sat, 08 Sep 2018 11:58:02: 12000000 INFO @ Sat, 08 Sep 2018 11:58:06: 13000000 INFO @ Sat, 08 Sep 2018 11:58:07: 13000000 INFO @ Sat, 08 Sep 2018 11:58:09: 13000000 INFO @ Sat, 08 Sep 2018 11:58:13: 14000000 INFO @ Sat, 08 Sep 2018 11:58:14: 14000000 INFO @ Sat, 08 Sep 2018 11:58:15: 14000000 INFO @ Sat, 08 Sep 2018 11:58:20: 15000000 INFO @ Sat, 08 Sep 2018 11:58:21: 15000000 INFO @ Sat, 08 Sep 2018 11:58:22: 15000000 INFO @ Sat, 08 Sep 2018 11:58:27: 16000000 INFO @ Sat, 08 Sep 2018 11:58:28: 16000000 INFO @ Sat, 08 Sep 2018 11:58:29: 16000000 INFO @ Sat, 08 Sep 2018 11:58:33: 17000000 INFO @ Sat, 08 Sep 2018 11:58:35: 17000000 INFO @ Sat, 08 Sep 2018 11:58:35: 17000000 INFO @ Sat, 08 Sep 2018 11:58:40: 18000000 INFO @ Sat, 08 Sep 2018 11:58:41: 18000000 INFO @ Sat, 08 Sep 2018 11:58:42: 18000000 INFO @ Sat, 08 Sep 2018 11:58:47: 19000000 INFO @ Sat, 08 Sep 2018 11:58:48: 19000000 INFO @ Sat, 08 Sep 2018 11:58:49: 19000000 INFO @ Sat, 08 Sep 2018 11:58:54: 20000000 INFO @ Sat, 08 Sep 2018 11:58:55: 20000000 INFO @ Sat, 08 Sep 2018 11:58:56: 20000000 INFO @ Sat, 08 Sep 2018 11:59:00: 21000000 INFO @ Sat, 08 Sep 2018 11:59:02: 21000000 INFO @ Sat, 08 Sep 2018 11:59:02: 21000000 INFO @ Sat, 08 Sep 2018 11:59:07: 22000000 INFO @ Sat, 08 Sep 2018 11:59:09: 22000000 INFO @ Sat, 08 Sep 2018 11:59:09: 22000000 INFO @ Sat, 08 Sep 2018 11:59:14: 23000000 INFO @ Sat, 08 Sep 2018 11:59:15: 23000000 INFO @ Sat, 08 Sep 2018 11:59:16: 23000000 INFO @ Sat, 08 Sep 2018 11:59:20: 24000000 INFO @ Sat, 08 Sep 2018 11:59:22: 24000000 INFO @ Sat, 08 Sep 2018 11:59:23: 24000000 INFO @ Sat, 08 Sep 2018 11:59:27: 25000000 INFO @ Sat, 08 Sep 2018 11:59:29: 25000000 INFO @ Sat, 08 Sep 2018 11:59:29: 25000000 INFO @ Sat, 08 Sep 2018 11:59:34: 26000000 INFO @ Sat, 08 Sep 2018 11:59:36: 26000000 INFO @ Sat, 08 Sep 2018 11:59:36: 26000000 INFO @ Sat, 08 Sep 2018 11:59:40: 27000000 INFO @ Sat, 08 Sep 2018 11:59:42: 27000000 INFO @ Sat, 08 Sep 2018 11:59:43: 27000000 INFO @ Sat, 08 Sep 2018 11:59:47: 28000000 INFO @ Sat, 08 Sep 2018 11:59:49: 28000000 INFO @ Sat, 08 Sep 2018 11:59:50: 28000000 INFO @ Sat, 08 Sep 2018 11:59:54: 29000000 INFO @ Sat, 08 Sep 2018 11:59:56: 29000000 INFO @ Sat, 08 Sep 2018 11:59:56: 29000000 INFO @ Sat, 08 Sep 2018 12:00:00: 30000000 INFO @ Sat, 08 Sep 2018 12:00:03: 30000000 INFO @ Sat, 08 Sep 2018 12:00:03: 30000000 INFO @ Sat, 08 Sep 2018 12:00:07: 31000000 INFO @ Sat, 08 Sep 2018 12:00:10: 31000000 INFO @ Sat, 08 Sep 2018 12:00:10: 31000000 INFO @ Sat, 08 Sep 2018 12:00:14: 32000000 INFO @ Sat, 08 Sep 2018 12:00:16: 32000000 INFO @ Sat, 08 Sep 2018 12:00:17: 32000000 INFO @ Sat, 08 Sep 2018 12:00:20: 33000000 INFO @ Sat, 08 Sep 2018 12:00:23: 33000000 INFO @ Sat, 08 Sep 2018 12:00:23: 33000000 INFO @ Sat, 08 Sep 2018 12:00:27: 34000000 INFO @ Sat, 08 Sep 2018 12:00:29: 34000000 INFO @ Sat, 08 Sep 2018 12:00:30: 34000000 INFO @ Sat, 08 Sep 2018 12:00:34: 35000000 INFO @ Sat, 08 Sep 2018 12:00:36: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:00:36: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:00:36: #1 total tags in treatment: 35231319 INFO @ Sat, 08 Sep 2018 12:00:36: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:00:36: #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 12:00:36: 35000000 INFO @ Sat, 08 Sep 2018 12:00:36: #1 tags after filtering in treatment: 35231319 INFO @ Sat, 08 Sep 2018 12:00:36: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:00:36: #1 finished! INFO @ Sat, 08 Sep 2018 12:00:36: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:00:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:00:37: 35000000 INFO @ Sat, 08 Sep 2018 12:00:37: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:00:37: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:00:37: #1 total tags in treatment: 35231319 INFO @ Sat, 08 Sep 2018 12:00:37: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:00:37: #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 12:00:38: #1 tags after filtering in treatment: 35231319 INFO @ Sat, 08 Sep 2018 12:00:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:00:38: #1 finished! INFO @ Sat, 08 Sep 2018 12:00:38: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:00:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:00:38: #2 number of paired peaks: 13 WARNING @ Sat, 08 Sep 2018 12:00:38: Too few paired peaks (13) 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 12:00:38: Process for pairing-model is terminated! cat: SRX3583348.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Sat, 08 Sep 2018 12:00:39: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:00:39: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:00:39: #1 total tags in treatment: 35231319 INFO @ Sat, 08 Sep 2018 12:00:39: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:00:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) pass1 - making usageList (0 chroms): 12 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3583348.05_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 `SRX3583348.05_*.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 `SRX3583348.05_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 @ Sat, 08 Sep 2018 12:00:39: #1 tags after filtering in treatment: 35231319 INFO @ Sat, 08 Sep 2018 12:00:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:00:39: #1 finished! INFO @ Sat, 08 Sep 2018 12:00:39: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:00:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:00:40: #2 number of paired peaks: 13 WARNING @ Sat, 08 Sep 2018 12:00:40: Too few paired peaks (13) 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 12:00:40: Process for pairing-model is terminated! cat: SRX3583348.20_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 `SRX3583348.20_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 `SRX3583348.20_*.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 `SRX3583348.20_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 12:00:42: #2 number of paired peaks: 13 WARNING @ Sat, 08 Sep 2018 12:00:42: Too few paired peaks (13) 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 12:00:42: Process for pairing-model is terminated! cat: SRX3583348.10_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): 10 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3583348.10_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 `SRX3583348.10_*.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 `SRX3583348.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。