Job ID = 9161823 sra ファイルのダウンロード中... Completed: 602436K bytes transferred in 8 seconds (611876K 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 19284242 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1066353/SRR2071185.sra Written 19284242 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: 00:03:39 19284242 reads; of these: 19284242 (100.00%) were unpaired; of these: 1443535 (7.49%) aligned 0 times 15069765 (78.15%) aligned exactly 1 time 2770942 (14.37%) aligned >1 times 92.51% overall alignment rate Time searching: 00:03:39 Overall time: 00:03:39 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] 7298343 / 17840707 = 0.4091 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 04:49:47: # Command line: callpeak -t SRX1066353.bam -f BAM -g 12100000 -n SRX1066353.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1066353.20 # format = BAM # ChIP-seq file = ['SRX1066353.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 04:49:47: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:49:47: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:49:47: # Command line: callpeak -t SRX1066353.bam -f BAM -g 12100000 -n SRX1066353.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1066353.10 # format = BAM # ChIP-seq file = ['SRX1066353.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 04:49:47: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:49:47: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:49:47: # Command line: callpeak -t SRX1066353.bam -f BAM -g 12100000 -n SRX1066353.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1066353.05 # format = BAM # ChIP-seq file = ['SRX1066353.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 04:49:47: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:49:47: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:49:55: 1000000 INFO @ Wed, 28 Jun 2017 04:49:55: 1000000 INFO @ Wed, 28 Jun 2017 04:49:55: 1000000 INFO @ Wed, 28 Jun 2017 04:50:02: 2000000 INFO @ Wed, 28 Jun 2017 04:50:02: 2000000 INFO @ Wed, 28 Jun 2017 04:50:03: 2000000 INFO @ Wed, 28 Jun 2017 04:50:10: 3000000 INFO @ Wed, 28 Jun 2017 04:50:10: 3000000 INFO @ Wed, 28 Jun 2017 04:50:10: 3000000 INFO @ Wed, 28 Jun 2017 04:50:17: 4000000 INFO @ Wed, 28 Jun 2017 04:50:17: 4000000 INFO @ Wed, 28 Jun 2017 04:50:18: 4000000 INFO @ Wed, 28 Jun 2017 04:50:25: 5000000 INFO @ Wed, 28 Jun 2017 04:50:25: 5000000 INFO @ Wed, 28 Jun 2017 04:50:25: 5000000 INFO @ Wed, 28 Jun 2017 04:50:32: 6000000 INFO @ Wed, 28 Jun 2017 04:50:32: 6000000 INFO @ Wed, 28 Jun 2017 04:50:33: 6000000 INFO @ Wed, 28 Jun 2017 04:50:39: 7000000 INFO @ Wed, 28 Jun 2017 04:50:40: 7000000 INFO @ Wed, 28 Jun 2017 04:50:40: 7000000 INFO @ Wed, 28 Jun 2017 04:50:47: 8000000 INFO @ Wed, 28 Jun 2017 04:50:48: 8000000 INFO @ Wed, 28 Jun 2017 04:50:48: 8000000 INFO @ Wed, 28 Jun 2017 04:50:54: 9000000 INFO @ Wed, 28 Jun 2017 04:50:55: 9000000 INFO @ Wed, 28 Jun 2017 04:50:56: 9000000 INFO @ Wed, 28 Jun 2017 04:51:02: 10000000 INFO @ Wed, 28 Jun 2017 04:51:03: 10000000 INFO @ Wed, 28 Jun 2017 04:51:04: 10000000 INFO @ Wed, 28 Jun 2017 04:51:06: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:51:06: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:51:06: #1 total tags in treatment: 10542364 INFO @ Wed, 28 Jun 2017 04:51:06: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:51:06: #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 04:51:06: #1 tags after filtering in treatment: 10542364 INFO @ Wed, 28 Jun 2017 04:51:06: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:51:06: #1 finished! INFO @ Wed, 28 Jun 2017 04:51:06: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:51:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:51:06: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:51:06: 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 04:51:06: Process for pairing-model is terminated! cat: SRX1066353.05_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 `SRX1066353.05_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 `SRX1066353.05_*.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 `SRX1066353.05_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 04:51:07: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:51:07: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:51:07: #1 total tags in treatment: 10542364 INFO @ Wed, 28 Jun 2017 04:51:07: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:51:07: #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 04:51:07: #1 tags after filtering in treatment: 10542364 INFO @ Wed, 28 Jun 2017 04:51:07: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:51:07: #1 finished! INFO @ Wed, 28 Jun 2017 04:51:07: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:51:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:51:08: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:51:08: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:51:08: #1 total tags in treatment: 10542364 INFO @ Wed, 28 Jun 2017 04:51:08: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:51:08: #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 04:51:08: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:51:08: 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 04:51:08: Process for pairing-model is terminated! cat: SRX1066353.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1066353.10_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 `SRX1066353.10_*.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 `SRX1066353.10_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 04:51:08: #1 tags after filtering in treatment: 10542364 INFO @ Wed, 28 Jun 2017 04:51:08: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:51:08: #1 finished! INFO @ Wed, 28 Jun 2017 04:51:08: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:51:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:51:09: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:51:09: 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 04:51:09: Process for pairing-model is terminated! cat: SRX1066353.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1066353.20_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 `SRX1066353.20_*.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 `SRX1066353.20_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。