Job ID = 9161881 sra ファイルのダウンロード中... Completed: 350846K bytes transferred in 6 seconds (466952K 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 17803760 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1241193/SRR2394708.sra Written 17803760 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: 00:03:26 17803760 reads; of these: 17803760 (100.00%) were unpaired; of these: 754570 (4.24%) aligned 0 times 14192592 (79.72%) aligned exactly 1 time 2856598 (16.04%) aligned >1 times 95.76% overall alignment rate Time searching: 00:03:26 Overall time: 00:03:26 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] 6029947 / 17049190 = 0.3537 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 04:58:51: # Command line: callpeak -t SRX1241193.bam -f BAM -g 12100000 -n SRX1241193.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1241193.20 # format = BAM # ChIP-seq file = ['SRX1241193.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 04:58:51: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:58:51: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:58:51: # Command line: callpeak -t SRX1241193.bam -f BAM -g 12100000 -n SRX1241193.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1241193.10 # format = BAM # ChIP-seq file = ['SRX1241193.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 04:58:51: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:58:51: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:58:51: # Command line: callpeak -t SRX1241193.bam -f BAM -g 12100000 -n SRX1241193.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1241193.05 # format = BAM # ChIP-seq file = ['SRX1241193.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 04:58:51: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:58:51: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:58:58: 1000000 INFO @ Wed, 28 Jun 2017 04:58:59: 1000000 INFO @ Wed, 28 Jun 2017 04:58:59: 1000000 INFO @ Wed, 28 Jun 2017 04:59:05: 2000000 INFO @ Wed, 28 Jun 2017 04:59:07: 2000000 INFO @ Wed, 28 Jun 2017 04:59:07: 2000000 INFO @ Wed, 28 Jun 2017 04:59:11: 3000000 INFO @ Wed, 28 Jun 2017 04:59:15: 3000000 INFO @ Wed, 28 Jun 2017 04:59:15: 3000000 INFO @ Wed, 28 Jun 2017 04:59:18: 4000000 INFO @ Wed, 28 Jun 2017 04:59:23: 4000000 INFO @ Wed, 28 Jun 2017 04:59:23: 4000000 INFO @ Wed, 28 Jun 2017 04:59:25: 5000000 INFO @ Wed, 28 Jun 2017 04:59:31: 5000000 INFO @ Wed, 28 Jun 2017 04:59:31: 5000000 INFO @ Wed, 28 Jun 2017 04:59:31: 6000000 INFO @ Wed, 28 Jun 2017 04:59:38: 7000000 INFO @ Wed, 28 Jun 2017 04:59:39: 6000000 INFO @ Wed, 28 Jun 2017 04:59:39: 6000000 INFO @ Wed, 28 Jun 2017 04:59:44: 8000000 INFO @ Wed, 28 Jun 2017 04:59:46: 7000000 INFO @ Wed, 28 Jun 2017 04:59:46: 7000000 INFO @ Wed, 28 Jun 2017 04:59:51: 9000000 INFO @ Wed, 28 Jun 2017 04:59:54: 8000000 INFO @ Wed, 28 Jun 2017 04:59:54: 8000000 INFO @ Wed, 28 Jun 2017 04:59:57: 10000000 INFO @ Wed, 28 Jun 2017 05:00:02: 9000000 INFO @ Wed, 28 Jun 2017 05:00:02: 9000000 INFO @ Wed, 28 Jun 2017 05:00:04: 11000000 INFO @ Wed, 28 Jun 2017 05:00:04: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 05:00:04: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 05:00:04: #1 total tags in treatment: 11019243 INFO @ Wed, 28 Jun 2017 05:00:04: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:00:04: #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 05:00:04: #1 tags after filtering in treatment: 11019243 INFO @ Wed, 28 Jun 2017 05:00:04: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:00:04: #1 finished! INFO @ Wed, 28 Jun 2017 05:00:04: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:00:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:00:05: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:00:05: 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 05:00:05: Process for pairing-model is terminated! cat: SRX1241193.20_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 `SRX1241193.20_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 `SRX1241193.20_*.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 `SRX1241193.20_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 05:00:09: 10000000 INFO @ Wed, 28 Jun 2017 05:00:09: 10000000 INFO @ Wed, 28 Jun 2017 05:00:16: 11000000 INFO @ Wed, 28 Jun 2017 05:00:17: 11000000 INFO @ Wed, 28 Jun 2017 05:00:17: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 05:00:17: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 05:00:17: #1 total tags in treatment: 11019243 INFO @ Wed, 28 Jun 2017 05:00:17: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:00:17: #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 05:00:17: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 05:00:17: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 05:00:17: #1 total tags in treatment: 11019243 INFO @ Wed, 28 Jun 2017 05:00:17: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:00:17: #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 05:00:17: #1 tags after filtering in treatment: 11019243 INFO @ Wed, 28 Jun 2017 05:00:17: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:00:17: #1 finished! INFO @ Wed, 28 Jun 2017 05:00:17: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:00:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:00:17: #1 tags after filtering in treatment: 11019243 INFO @ Wed, 28 Jun 2017 05:00:17: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:00:17: #1 finished! INFO @ Wed, 28 Jun 2017 05:00:17: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:00:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:00:18: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:00:18: 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 05:00:18: Process for pairing-model is terminated! cat: SRX1241193.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 05:00:18: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:00:18: 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 05:00:18: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1241193.05_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 `SRX1241193.05_*.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 `SRX1241193.05_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 cat: SRX1241193.10_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 `SRX1241193.10_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 `SRX1241193.10_*.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 `SRX1241193.10_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。