Job ID = 9162244 sra ファイルのダウンロード中... Completed: 756265K bytes transferred in 8 seconds (755888K bits/sec), in 1 file, 2 directories. 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... Written 21638707 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1791108/SRR3567983.sra Written 21638707 spots total 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: 00:04:08 21638707 reads; of these: 21638707 (100.00%) were unpaired; of these: 733073 (3.39%) aligned 0 times 18112025 (83.70%) aligned exactly 1 time 2793609 (12.91%) aligned >1 times 96.61% overall alignment rate Time searching: 00:04:08 Overall time: 00:04:08 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 8100627 / 20905634 = 0.3875 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 @ Wed, 28 Jun 2017 07:10:20: # Command line: callpeak -t SRX1791108.bam -f BAM -g 12100000 -n SRX1791108.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1791108.05 # format = BAM # ChIP-seq file = ['SRX1791108.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 28 Jun 2017 07:10:20: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:10:20: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:10:20: # Command line: callpeak -t SRX1791108.bam -f BAM -g 12100000 -n SRX1791108.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1791108.10 # format = BAM # ChIP-seq file = ['SRX1791108.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 28 Jun 2017 07:10:20: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:10:20: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:10:20: # Command line: callpeak -t SRX1791108.bam -f BAM -g 12100000 -n SRX1791108.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1791108.20 # format = BAM # ChIP-seq file = ['SRX1791108.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 28 Jun 2017 07:10:20: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:10:20: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:10:26: 1000000 INFO @ Wed, 28 Jun 2017 07:10:27: 1000000 INFO @ Wed, 28 Jun 2017 07:10:27: 1000000 INFO @ Wed, 28 Jun 2017 07:10:33: 2000000 INFO @ Wed, 28 Jun 2017 07:10:33: 2000000 INFO @ Wed, 28 Jun 2017 07:10:33: 2000000 INFO @ Wed, 28 Jun 2017 07:10:40: 3000000 INFO @ Wed, 28 Jun 2017 07:10:40: 3000000 INFO @ Wed, 28 Jun 2017 07:10:40: 3000000 INFO @ Wed, 28 Jun 2017 07:10:47: 4000000 INFO @ Wed, 28 Jun 2017 07:10:47: 4000000 INFO @ Wed, 28 Jun 2017 07:10:47: 4000000 INFO @ Wed, 28 Jun 2017 07:10:53: 5000000 INFO @ Wed, 28 Jun 2017 07:10:54: 5000000 INFO @ Wed, 28 Jun 2017 07:10:55: 5000000 INFO @ Wed, 28 Jun 2017 07:11:00: 6000000 INFO @ Wed, 28 Jun 2017 07:11:00: 6000000 INFO @ Wed, 28 Jun 2017 07:11:02: 6000000 INFO @ Wed, 28 Jun 2017 07:11:06: 7000000 INFO @ Wed, 28 Jun 2017 07:11:08: 7000000 INFO @ Wed, 28 Jun 2017 07:11:09: 7000000 INFO @ Wed, 28 Jun 2017 07:11:13: 8000000 INFO @ Wed, 28 Jun 2017 07:11:15: 8000000 INFO @ Wed, 28 Jun 2017 07:11:16: 8000000 INFO @ Wed, 28 Jun 2017 07:11:20: 9000000 INFO @ Wed, 28 Jun 2017 07:11:22: 9000000 INFO @ Wed, 28 Jun 2017 07:11:24: 9000000 INFO @ Wed, 28 Jun 2017 07:11:26: 10000000 INFO @ Wed, 28 Jun 2017 07:11:29: 10000000 INFO @ Wed, 28 Jun 2017 07:11:32: 10000000 INFO @ Wed, 28 Jun 2017 07:11:33: 11000000 INFO @ Wed, 28 Jun 2017 07:11:37: 11000000 INFO @ Wed, 28 Jun 2017 07:11:39: 11000000 INFO @ Wed, 28 Jun 2017 07:11:40: 12000000 INFO @ Wed, 28 Jun 2017 07:11:44: 12000000 INFO @ Wed, 28 Jun 2017 07:11:45: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:11:45: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:11:45: #1 total tags in treatment: 12805007 INFO @ Wed, 28 Jun 2017 07:11:45: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:11:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:11:45: #1 tags after filtering in treatment: 12805007 INFO @ Wed, 28 Jun 2017 07:11:45: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:11:45: #1 finished! INFO @ Wed, 28 Jun 2017 07:11:45: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:11:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:11:46: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:11:46: Too few paired peaks (0) 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 @ Wed, 28 Jun 2017 07:11:46: Process for pairing-model is terminated! cat: SRX1791108.20_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 `SRX1791108.20_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 `SRX1791108.20_*.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 `SRX1791108.20_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 @ Wed, 28 Jun 2017 07:11:46: 12000000 INFO @ Wed, 28 Jun 2017 07:11:50: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:11:50: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:11:50: #1 total tags in treatment: 12805007 INFO @ Wed, 28 Jun 2017 07:11:50: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:11:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:11:50: #1 tags after filtering in treatment: 12805007 INFO @ Wed, 28 Jun 2017 07:11:50: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:11:50: #1 finished! INFO @ Wed, 28 Jun 2017 07:11:50: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:11:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:11:51: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:11:51: Too few paired peaks (0) 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 @ Wed, 28 Jun 2017 07:11:51: Process for pairing-model is terminated! cat: SRX1791108.05_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 `SRX1791108.05_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 `SRX1791108.05_*.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 `SRX1791108.05_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 @ Wed, 28 Jun 2017 07:11:52: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:11:52: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:11:52: #1 total tags in treatment: 12805007 INFO @ Wed, 28 Jun 2017 07:11:52: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:11:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:11:52: #1 tags after filtering in treatment: 12805007 INFO @ Wed, 28 Jun 2017 07:11:52: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:11:52: #1 finished! INFO @ Wed, 28 Jun 2017 07:11:52: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:11:52: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:11:53: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:11:53: Too few paired peaks (0) 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 @ Wed, 28 Jun 2017 07:11:53: Process for pairing-model is terminated! cat: SRX1791108.10_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 `SRX1791108.10_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 `SRX1791108.10_*.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 `SRX1791108.10_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。