Job ID = 11170852 sra ファイルのダウンロード中... Completed: 979947K bytes transferred in 90 seconds (88392K 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 34339953 spots for /home/okishinya/chipatlas/results/ce10/SRX3583352/SRR6494008.sra Written 34339953 spots for /home/okishinya/chipatlas/results/ce10/SRX3583352/SRR6494008.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:14:16 34339953 reads; of these: 34339953 (100.00%) were unpaired; of these: 656545 (1.91%) aligned 0 times 28083458 (81.78%) aligned exactly 1 time 5599950 (16.31%) aligned >1 times 98.09% overall alignment rate Time searching: 00:14:17 Overall time: 00:14:17 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] 4853451 / 33683408 = 0.1441 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 11:51:52: # Command line: callpeak -t SRX3583352.bam -f BAM -g ce -n SRX3583352.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3583352.20 # format = BAM # ChIP-seq file = ['SRX3583352.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 11:51:52: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:51:52: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:51:52: # Command line: callpeak -t SRX3583352.bam -f BAM -g ce -n SRX3583352.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3583352.10 # format = BAM # ChIP-seq file = ['SRX3583352.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 11:51:52: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:51:52: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:51:52: # Command line: callpeak -t SRX3583352.bam -f BAM -g ce -n SRX3583352.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3583352.05 # format = BAM # ChIP-seq file = ['SRX3583352.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 11:51:52: #1 read tag files... INFO @ Sat, 08 Sep 2018 11:51:52: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 11:52:01: 1000000 INFO @ Sat, 08 Sep 2018 11:52:01: 1000000 INFO @ Sat, 08 Sep 2018 11:52:01: 1000000 INFO @ Sat, 08 Sep 2018 11:52:09: 2000000 INFO @ Sat, 08 Sep 2018 11:52:09: 2000000 INFO @ Sat, 08 Sep 2018 11:52:10: 2000000 INFO @ Sat, 08 Sep 2018 11:52:19: 3000000 INFO @ Sat, 08 Sep 2018 11:52:19: 3000000 INFO @ Sat, 08 Sep 2018 11:52:20: 3000000 INFO @ Sat, 08 Sep 2018 11:52:28: 4000000 INFO @ Sat, 08 Sep 2018 11:52:28: 4000000 INFO @ Sat, 08 Sep 2018 11:52:30: 4000000 INFO @ Sat, 08 Sep 2018 11:52:38: 5000000 INFO @ Sat, 08 Sep 2018 11:52:38: 5000000 INFO @ Sat, 08 Sep 2018 11:52:39: 5000000 INFO @ Sat, 08 Sep 2018 11:52:48: 6000000 INFO @ Sat, 08 Sep 2018 11:52:48: 6000000 INFO @ Sat, 08 Sep 2018 11:52:49: 6000000 INFO @ Sat, 08 Sep 2018 11:52:57: 7000000 INFO @ Sat, 08 Sep 2018 11:52:58: 7000000 INFO @ Sat, 08 Sep 2018 11:52:58: 7000000 INFO @ Sat, 08 Sep 2018 11:53:08: 8000000 INFO @ Sat, 08 Sep 2018 11:53:08: 8000000 INFO @ Sat, 08 Sep 2018 11:53:09: 8000000 INFO @ Sat, 08 Sep 2018 11:53:18: 9000000 INFO @ Sat, 08 Sep 2018 11:53:19: 9000000 INFO @ Sat, 08 Sep 2018 11:53:20: 9000000 INFO @ Sat, 08 Sep 2018 11:53:27: 10000000 INFO @ Sat, 08 Sep 2018 11:53:29: 10000000 INFO @ Sat, 08 Sep 2018 11:53:32: 10000000 INFO @ Sat, 08 Sep 2018 11:53:37: 11000000 INFO @ Sat, 08 Sep 2018 11:53:38: 11000000 INFO @ Sat, 08 Sep 2018 11:53:43: 11000000 INFO @ Sat, 08 Sep 2018 11:53:47: 12000000 INFO @ Sat, 08 Sep 2018 11:53:47: 12000000 INFO @ Sat, 08 Sep 2018 11:53:54: 12000000 INFO @ Sat, 08 Sep 2018 11:53:55: 13000000 INFO @ Sat, 08 Sep 2018 11:53:56: 13000000 INFO @ Sat, 08 Sep 2018 11:54:05: 14000000 INFO @ Sat, 08 Sep 2018 11:54:05: 13000000 INFO @ Sat, 08 Sep 2018 11:54:05: 14000000 INFO @ Sat, 08 Sep 2018 11:54:14: 15000000 INFO @ Sat, 08 Sep 2018 11:54:15: 15000000 INFO @ Sat, 08 Sep 2018 11:54:16: 14000000 INFO @ Sat, 08 Sep 2018 11:54:24: 16000000 INFO @ Sat, 08 Sep 2018 11:54:24: 16000000 INFO @ Sat, 08 Sep 2018 11:54:25: 15000000 INFO @ Sat, 08 Sep 2018 11:54:33: 17000000 INFO @ Sat, 08 Sep 2018 11:54:34: 16000000 INFO @ Sat, 08 Sep 2018 11:54:34: 17000000 INFO @ Sat, 08 Sep 2018 11:54:43: 18000000 INFO @ Sat, 08 Sep 2018 11:54:43: 17000000 INFO @ Sat, 08 Sep 2018 11:54:45: 18000000 INFO @ Sat, 08 Sep 2018 11:54:53: 19000000 INFO @ Sat, 08 Sep 2018 11:54:54: 18000000 INFO @ Sat, 08 Sep 2018 11:54:55: 19000000 INFO @ Sat, 08 Sep 2018 11:55:05: 20000000 INFO @ Sat, 08 Sep 2018 11:55:05: 19000000 INFO @ Sat, 08 Sep 2018 11:55:06: 20000000 INFO @ Sat, 08 Sep 2018 11:55:16: 21000000 INFO @ Sat, 08 Sep 2018 11:55:16: 20000000 INFO @ Sat, 08 Sep 2018 11:55:16: 21000000 INFO @ Sat, 08 Sep 2018 11:55:26: 22000000 INFO @ Sat, 08 Sep 2018 11:55:26: 22000000 INFO @ Sat, 08 Sep 2018 11:55:27: 21000000 INFO @ Sat, 08 Sep 2018 11:55:35: 23000000 INFO @ Sat, 08 Sep 2018 11:55:36: 22000000 INFO @ Sat, 08 Sep 2018 11:55:36: 23000000 INFO @ Sat, 08 Sep 2018 11:55:43: 24000000 INFO @ Sat, 08 Sep 2018 11:55:44: 24000000 INFO @ Sat, 08 Sep 2018 11:55:44: 23000000 INFO @ Sat, 08 Sep 2018 11:55:51: 25000000 INFO @ Sat, 08 Sep 2018 11:55:51: 25000000 INFO @ Sat, 08 Sep 2018 11:55:52: 24000000 INFO @ Sat, 08 Sep 2018 11:55:58: 26000000 INFO @ Sat, 08 Sep 2018 11:55:59: 26000000 INFO @ Sat, 08 Sep 2018 11:56:00: 25000000 INFO @ Sat, 08 Sep 2018 11:56:06: 27000000 INFO @ Sat, 08 Sep 2018 11:56:07: 27000000 INFO @ Sat, 08 Sep 2018 11:56:08: 26000000 INFO @ Sat, 08 Sep 2018 11:56:13: 28000000 INFO @ Sat, 08 Sep 2018 11:56:15: 28000000 INFO @ Sat, 08 Sep 2018 11:56:16: 27000000 INFO @ Sat, 08 Sep 2018 11:56:20: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:56:20: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:56:20: #1 total tags in treatment: 28829957 INFO @ Sat, 08 Sep 2018 11:56:20: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:56:20: #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 11:56:20: #1 tags after filtering in treatment: 28829957 INFO @ Sat, 08 Sep 2018 11:56:20: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:56:20: #1 finished! INFO @ Sat, 08 Sep 2018 11:56:20: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:56:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:56:21: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:56:21: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:56:21: #1 total tags in treatment: 28829957 INFO @ Sat, 08 Sep 2018 11:56:21: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:56:21: #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 11:56:22: #2 number of paired peaks: 69 WARNING @ Sat, 08 Sep 2018 11:56:22: Too few paired peaks (69) 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 11:56:22: Process for pairing-model is terminated! cat: SRX3583352.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Sat, 08 Sep 2018 11:56:22: #1 tags after filtering in treatment: 28829957 INFO @ Sat, 08 Sep 2018 11:56:22: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:56:22: #1 finished! INFO @ Sat, 08 Sep 2018 11:56:22: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:56:22: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3583352.20_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 `SRX3583352.20_*.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 `SRX3583352.20_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 11:56:24: #2 number of paired peaks: 69 WARNING @ Sat, 08 Sep 2018 11:56:24: Too few paired peaks (69) 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 11:56:24: Process for pairing-model is terminated! cat: SRX3583352.05_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) INFO @ Sat, 08 Sep 2018 11:56:24: 28000000 rm: cannot remove `SRX3583352.05_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 `SRX3583352.05_*.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 `SRX3583352.05_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 11:56:30: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 11:56:30: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 11:56:30: #1 total tags in treatment: 28829957 INFO @ Sat, 08 Sep 2018 11:56:30: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 11:56:30: #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 11:56:31: #1 tags after filtering in treatment: 28829957 INFO @ Sat, 08 Sep 2018 11:56:31: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 11:56:31: #1 finished! INFO @ Sat, 08 Sep 2018 11:56:31: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 11:56:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 11:56:33: #2 number of paired peaks: 69 WARNING @ Sat, 08 Sep 2018 11:56:33: Too few paired peaks (69) 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 11:56:33: Process for pairing-model is terminated! cat: SRX3583352.10_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 `SRX3583352.10_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 `SRX3583352.10_*.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 `SRX3583352.10_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。