Job ID = 9163639 sra ファイルのダウンロード中... Completed: 519663K bytes transferred in 7 seconds (545734K bits/sec), in 2 files, 3 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 8298631 spots for /home/okishinya/chipatlas/results/sacCer3/SRX974686/SRR1948330.sra Written 8298631 spots total Written 8520096 spots for /home/okishinya/chipatlas/results/sacCer3/SRX974686/SRR1948331.sra Written 8520096 spots total 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 16818727 reads; of these: 16818727 (100.00%) were unpaired; of these: 497962 (2.96%) aligned 0 times 13891133 (82.59%) aligned exactly 1 time 2429632 (14.45%) aligned >1 times 97.04% 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] 6933845 / 16320765 = 0.4248 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 11:16:54: # Command line: callpeak -t SRX974686.bam -f BAM -g 12100000 -n SRX974686.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX974686.10 # format = BAM # ChIP-seq file = ['SRX974686.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 11:16:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:16:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:16:54: # Command line: callpeak -t SRX974686.bam -f BAM -g 12100000 -n SRX974686.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX974686.20 # format = BAM # ChIP-seq file = ['SRX974686.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 11:16:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:16:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:16:54: # Command line: callpeak -t SRX974686.bam -f BAM -g 12100000 -n SRX974686.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX974686.05 # format = BAM # ChIP-seq file = ['SRX974686.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 11:16:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:16:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:17:01: 1000000 INFO @ Wed, 28 Jun 2017 11:17:02: 1000000 INFO @ Wed, 28 Jun 2017 11:17:02: 1000000 INFO @ Wed, 28 Jun 2017 11:17:08: 2000000 INFO @ Wed, 28 Jun 2017 11:17:09: 2000000 INFO @ Wed, 28 Jun 2017 11:17:09: 2000000 INFO @ Wed, 28 Jun 2017 11:17:15: 3000000 INFO @ Wed, 28 Jun 2017 11:17:17: 3000000 INFO @ Wed, 28 Jun 2017 11:17:17: 3000000 INFO @ Wed, 28 Jun 2017 11:17:21: 4000000 INFO @ Wed, 28 Jun 2017 11:17:24: 4000000 INFO @ Wed, 28 Jun 2017 11:17:24: 4000000 INFO @ Wed, 28 Jun 2017 11:17:29: 5000000 INFO @ Wed, 28 Jun 2017 11:17:31: 5000000 INFO @ Wed, 28 Jun 2017 11:17:32: 5000000 INFO @ Wed, 28 Jun 2017 11:17:36: 6000000 INFO @ Wed, 28 Jun 2017 11:17:38: 6000000 INFO @ Wed, 28 Jun 2017 11:17:39: 6000000 INFO @ Wed, 28 Jun 2017 11:17:44: 7000000 INFO @ Wed, 28 Jun 2017 11:17:44: 7000000 INFO @ Wed, 28 Jun 2017 11:17:47: 7000000 INFO @ Wed, 28 Jun 2017 11:17:51: 8000000 INFO @ Wed, 28 Jun 2017 11:17:51: 8000000 INFO @ Wed, 28 Jun 2017 11:17:55: 8000000 INFO @ Wed, 28 Jun 2017 11:17:58: 9000000 INFO @ Wed, 28 Jun 2017 11:17:58: 9000000 INFO @ Wed, 28 Jun 2017 11:18:01: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:18:01: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:18:01: #1 total tags in treatment: 9386920 INFO @ Wed, 28 Jun 2017 11:18:01: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:18:01: #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 11:18:01: #1 tags after filtering in treatment: 9386920 INFO @ Wed, 28 Jun 2017 11:18:01: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:18:01: #1 finished! INFO @ Wed, 28 Jun 2017 11:18:01: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:18:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:18:01: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:18:01: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:18:01: #1 total tags in treatment: 9386920 INFO @ Wed, 28 Jun 2017 11:18:01: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:18:01: #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 11:18:01: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:18:01: 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 11:18:01: Process for pairing-model is terminated! cat: SRX974686.05_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 `SRX974686.05_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 `SRX974686.05_*.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 `SRX974686.05_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 11:18:01: #1 tags after filtering in treatment: 9386920 INFO @ Wed, 28 Jun 2017 11:18:01: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:18:01: #1 finished! INFO @ Wed, 28 Jun 2017 11:18:01: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:18:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:18:02: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:18:02: 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 11:18:02: Process for pairing-model is terminated! cat: SRX974686.10_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 `SRX974686.10_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 `SRX974686.10_*.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 `SRX974686.10_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 11:18:02: 9000000 INFO @ Wed, 28 Jun 2017 11:18:05: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:18:05: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:18:05: #1 total tags in treatment: 9386920 INFO @ Wed, 28 Jun 2017 11:18:05: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:18:05: #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 11:18:05: #1 tags after filtering in treatment: 9386920 INFO @ Wed, 28 Jun 2017 11:18:05: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:18:05: #1 finished! INFO @ Wed, 28 Jun 2017 11:18:05: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:18:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:18:06: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:18:06: 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 11:18:06: Process for pairing-model is terminated! cat: SRX974686.20_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 `SRX974686.20_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 `SRX974686.20_*.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 `SRX974686.20_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。