Job ID = 9162068 sra ファイルのダウンロード中... Completed: 383810K bytes transferred in 6 seconds (493489K 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 16914424 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1585392/SRR3170280.sra Written 16914424 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: 00:03:08 16914424 reads; of these: 16914424 (100.00%) were unpaired; of these: 1037708 (6.14%) aligned 0 times 14163198 (83.73%) aligned exactly 1 time 1713518 (10.13%) aligned >1 times 93.86% overall alignment rate Time searching: 00:03:08 Overall time: 00:03:08 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 8 files... [bam_rmdupse_core] 5677903 / 15876716 = 0.3576 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 05:49:49: # Command line: callpeak -t SRX1585392.bam -f BAM -g 12100000 -n SRX1585392.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1585392.10 # format = BAM # ChIP-seq file = ['SRX1585392.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 05:49:49: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:49:49: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:49:49: # Command line: callpeak -t SRX1585392.bam -f BAM -g 12100000 -n SRX1585392.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1585392.05 # format = BAM # ChIP-seq file = ['SRX1585392.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 05:49:49: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:49:49: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:49:49: # Command line: callpeak -t SRX1585392.bam -f BAM -g 12100000 -n SRX1585392.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1585392.20 # format = BAM # ChIP-seq file = ['SRX1585392.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 05:49:49: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:49:49: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:49:55: 1000000 INFO @ Wed, 28 Jun 2017 05:49:56: 1000000 INFO @ Wed, 28 Jun 2017 05:49:56: 1000000 INFO @ Wed, 28 Jun 2017 05:50:02: 2000000 INFO @ Wed, 28 Jun 2017 05:50:02: 2000000 INFO @ Wed, 28 Jun 2017 05:50:03: 2000000 INFO @ Wed, 28 Jun 2017 05:50:09: 3000000 INFO @ Wed, 28 Jun 2017 05:50:09: 3000000 INFO @ Wed, 28 Jun 2017 05:50:10: 3000000 INFO @ Wed, 28 Jun 2017 05:50:16: 4000000 INFO @ Wed, 28 Jun 2017 05:50:16: 4000000 INFO @ Wed, 28 Jun 2017 05:50:17: 4000000 INFO @ Wed, 28 Jun 2017 05:50:23: 5000000 INFO @ Wed, 28 Jun 2017 05:50:23: 5000000 INFO @ Wed, 28 Jun 2017 05:50:24: 5000000 INFO @ Wed, 28 Jun 2017 05:50:30: 6000000 INFO @ Wed, 28 Jun 2017 05:50:30: 6000000 INFO @ Wed, 28 Jun 2017 05:50:31: 6000000 INFO @ Wed, 28 Jun 2017 05:50:37: 7000000 INFO @ Wed, 28 Jun 2017 05:50:37: 7000000 INFO @ Wed, 28 Jun 2017 05:50:39: 7000000 INFO @ Wed, 28 Jun 2017 05:50:44: 8000000 INFO @ Wed, 28 Jun 2017 05:50:44: 8000000 INFO @ Wed, 28 Jun 2017 05:50:46: 8000000 INFO @ Wed, 28 Jun 2017 05:50:51: 9000000 INFO @ Wed, 28 Jun 2017 05:50:51: 9000000 INFO @ Wed, 28 Jun 2017 05:50:54: 9000000 INFO @ Wed, 28 Jun 2017 05:50:58: 10000000 INFO @ Wed, 28 Jun 2017 05:50:58: 10000000 INFO @ Wed, 28 Jun 2017 05:50:59: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:50:59: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:50:59: #1 total tags in treatment: 10198813 INFO @ Wed, 28 Jun 2017 05:50:59: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:50:59: #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 05:50:59: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:50:59: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:50:59: #1 total tags in treatment: 10198813 INFO @ Wed, 28 Jun 2017 05:50:59: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:50:59: #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 05:51:00: #1 tags after filtering in treatment: 10198813 INFO @ Wed, 28 Jun 2017 05:51:00: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:51:00: #1 finished! INFO @ Wed, 28 Jun 2017 05:51:00: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:51:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:51:00: #1 tags after filtering in treatment: 10198813 INFO @ Wed, 28 Jun 2017 05:51:00: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:51:00: #1 finished! INFO @ Wed, 28 Jun 2017 05:51:00: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:51:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:51:00: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:51:00: 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 05:51:00: Process for pairing-model is terminated! cat: SRX1585392.20_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 `SRX1585392.20_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 `SRX1585392.20_*.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 `SRX1585392.20_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 05:51:00: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:51:00: 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 05:51:00: Process for pairing-model is terminated! cat: SRX1585392.05_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 `SRX1585392.05_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 `SRX1585392.05_*.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 `SRX1585392.05_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 05:51:01: 10000000 INFO @ Wed, 28 Jun 2017 05:51:02: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:51:02: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:51:02: #1 total tags in treatment: 10198813 INFO @ Wed, 28 Jun 2017 05:51:02: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:51:02: #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 05:51:02: #1 tags after filtering in treatment: 10198813 INFO @ Wed, 28 Jun 2017 05:51:02: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:51:02: #1 finished! INFO @ Wed, 28 Jun 2017 05:51:02: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:51:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:51:03: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:51:03: 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 05:51:03: Process for pairing-model is terminated! cat: SRX1585392.10_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 `SRX1585392.10_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 `SRX1585392.10_*.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 `SRX1585392.10_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。