Job ID = 9162138 sra ファイルのダウンロード中... Completed: 1443659K bytes transferred in 14 seconds (814076K 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 24052494 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1702417/SRR3375882.sra Written 24052494 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: 00:11:29 24052494 reads; of these: 24052494 (100.00%) were unpaired; of these: 995081 (4.14%) aligned 0 times 20604793 (85.67%) aligned exactly 1 time 2452620 (10.20%) aligned >1 times 95.86% overall alignment rate Time searching: 00:11:29 Overall time: 00:11:29 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 20 files... [bam_rmdupse_core] 14124916 / 23057413 = 0.6126 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 06:31:36: # Command line: callpeak -t SRX1702417.bam -f BAM -g 12100000 -n SRX1702417.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1702417.10 # format = BAM # ChIP-seq file = ['SRX1702417.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 06:31:36: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:31:36: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:31:36: # Command line: callpeak -t SRX1702417.bam -f BAM -g 12100000 -n SRX1702417.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1702417.05 # format = BAM # ChIP-seq file = ['SRX1702417.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 06:31:36: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:31:36: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:31:36: # Command line: callpeak -t SRX1702417.bam -f BAM -g 12100000 -n SRX1702417.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1702417.20 # format = BAM # ChIP-seq file = ['SRX1702417.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 06:31:36: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:31:36: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:31:46: 1000000 INFO @ Wed, 28 Jun 2017 06:31:49: 1000000 INFO @ Wed, 28 Jun 2017 06:31:49: 1000000 INFO @ Wed, 28 Jun 2017 06:31:56: 2000000 INFO @ Wed, 28 Jun 2017 06:32:02: 2000000 INFO @ Wed, 28 Jun 2017 06:32:02: 2000000 INFO @ Wed, 28 Jun 2017 06:32:06: 3000000 INFO @ Wed, 28 Jun 2017 06:32:16: 3000000 INFO @ Wed, 28 Jun 2017 06:32:16: 3000000 INFO @ Wed, 28 Jun 2017 06:32:18: 4000000 INFO @ Wed, 28 Jun 2017 06:32:31: 4000000 INFO @ Wed, 28 Jun 2017 06:32:31: 4000000 INFO @ Wed, 28 Jun 2017 06:32:32: 5000000 INFO @ Wed, 28 Jun 2017 06:32:45: 6000000 INFO @ Wed, 28 Jun 2017 06:32:45: 5000000 INFO @ Wed, 28 Jun 2017 06:32:45: 5000000 INFO @ Wed, 28 Jun 2017 06:33:00: 7000000 INFO @ Wed, 28 Jun 2017 06:33:01: 6000000 INFO @ Wed, 28 Jun 2017 06:33:01: 6000000 INFO @ Wed, 28 Jun 2017 06:33:14: 8000000 INFO @ Wed, 28 Jun 2017 06:33:17: 7000000 INFO @ Wed, 28 Jun 2017 06:33:17: 7000000 INFO @ Wed, 28 Jun 2017 06:33:28: #1 tag size is determined as 128 bps INFO @ Wed, 28 Jun 2017 06:33:28: #1 tag size = 128 INFO @ Wed, 28 Jun 2017 06:33:28: #1 total tags in treatment: 8932497 INFO @ Wed, 28 Jun 2017 06:33:28: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:33:28: #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 06:33:28: #1 tags after filtering in treatment: 8932497 INFO @ Wed, 28 Jun 2017 06:33:28: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:33:28: #1 finished! INFO @ Wed, 28 Jun 2017 06:33:28: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:33:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:33:29: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:33:29: 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 06:33:29: Process for pairing-model is terminated! cat: SRX1702417.10_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 `SRX1702417.10_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 `SRX1702417.10_*.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 `SRX1702417.10_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 @ Wed, 28 Jun 2017 06:33:32: 8000000 INFO @ Wed, 28 Jun 2017 06:33:32: 8000000 INFO @ Wed, 28 Jun 2017 06:33:46: #1 tag size is determined as 128 bps INFO @ Wed, 28 Jun 2017 06:33:46: #1 tag size = 128 INFO @ Wed, 28 Jun 2017 06:33:46: #1 total tags in treatment: 8932497 INFO @ Wed, 28 Jun 2017 06:33:46: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:33:46: #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 06:33:46: #1 tag size is determined as 128 bps INFO @ Wed, 28 Jun 2017 06:33:46: #1 tag size = 128 INFO @ Wed, 28 Jun 2017 06:33:46: #1 total tags in treatment: 8932497 INFO @ Wed, 28 Jun 2017 06:33:46: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:33:46: #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 06:33:46: #1 tags after filtering in treatment: 8932497 INFO @ Wed, 28 Jun 2017 06:33:46: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:33:46: #1 finished! INFO @ Wed, 28 Jun 2017 06:33:46: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:33:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:33:46: #1 tags after filtering in treatment: 8932497 INFO @ Wed, 28 Jun 2017 06:33:46: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:33:46: #1 finished! INFO @ Wed, 28 Jun 2017 06:33:46: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:33:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:33:46: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:33:46: 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 06:33:46: Process for pairing-model is terminated! cat: SRX1702417.20_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) INFO @ Wed, 28 Jun 2017 06:33:46: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:33:46: 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 06:33:46: Process for pairing-model is terminated! rm: cannot remove `SRX1702417.20_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 `SRX1702417.20_*.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 `SRX1702417.20_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 cat: SRX1702417.05_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 `SRX1702417.05_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 `SRX1702417.05_*.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 `SRX1702417.05_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。