Job ID = 9161725 sra ファイルのダウンロード中... Completed: 507214K bytes transferred in 7 seconds (535161K 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 14049643 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1004417/SRR1986235.sra Written 14049643 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: 00:02:44 14049643 reads; of these: 14049643 (100.00%) were unpaired; of these: 334872 (2.38%) aligned 0 times 11864523 (84.45%) aligned exactly 1 time 1850248 (13.17%) aligned >1 times 97.62% overall alignment rate Time searching: 00:02:44 Overall time: 00:02:44 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] 7354518 / 13714771 = 0.5362 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 04:31:24: # Command line: callpeak -t SRX1004417.bam -f BAM -g 12100000 -n SRX1004417.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1004417.20 # format = BAM # ChIP-seq file = ['SRX1004417.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 04:31:24: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:31:24: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:31:24: # Command line: callpeak -t SRX1004417.bam -f BAM -g 12100000 -n SRX1004417.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1004417.10 # format = BAM # ChIP-seq file = ['SRX1004417.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 04:31:24: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:31:24: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:31:24: # Command line: callpeak -t SRX1004417.bam -f BAM -g 12100000 -n SRX1004417.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1004417.05 # format = BAM # ChIP-seq file = ['SRX1004417.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 04:31:24: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:31:24: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:31:30: 1000000 INFO @ Wed, 28 Jun 2017 04:31:31: 1000000 INFO @ Wed, 28 Jun 2017 04:31:31: 1000000 INFO @ Wed, 28 Jun 2017 04:31:37: 2000000 INFO @ Wed, 28 Jun 2017 04:31:37: 2000000 INFO @ Wed, 28 Jun 2017 04:31:37: 2000000 INFO @ Wed, 28 Jun 2017 04:31:43: 3000000 INFO @ Wed, 28 Jun 2017 04:31:44: 3000000 INFO @ Wed, 28 Jun 2017 04:31:44: 3000000 INFO @ Wed, 28 Jun 2017 04:31:49: 4000000 INFO @ Wed, 28 Jun 2017 04:31:50: 4000000 INFO @ Wed, 28 Jun 2017 04:31:51: 4000000 INFO @ Wed, 28 Jun 2017 04:31:55: 5000000 INFO @ Wed, 28 Jun 2017 04:31:57: 5000000 INFO @ Wed, 28 Jun 2017 04:31:57: 5000000 INFO @ Wed, 28 Jun 2017 04:32:02: 6000000 INFO @ Wed, 28 Jun 2017 04:32:04: 6000000 INFO @ Wed, 28 Jun 2017 04:32:04: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:32:04: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:32:04: #1 total tags in treatment: 6360253 INFO @ Wed, 28 Jun 2017 04:32:04: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:32:04: #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 04:32:04: #1 tags after filtering in treatment: 6360253 INFO @ Wed, 28 Jun 2017 04:32:04: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:32:04: #1 finished! INFO @ Wed, 28 Jun 2017 04:32:04: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:32:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:32:04: 6000000 INFO @ Wed, 28 Jun 2017 04:32:04: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:32:04: 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 04:32:04: Process for pairing-model is terminated! cat: SRX1004417.20_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 `SRX1004417.20_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 `SRX1004417.20_*.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 `SRX1004417.20_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 04:32:06: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:32:06: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:32:06: #1 total tags in treatment: 6360253 INFO @ Wed, 28 Jun 2017 04:32:06: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:32:06: #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 04:32:06: #1 tags after filtering in treatment: 6360253 INFO @ Wed, 28 Jun 2017 04:32:06: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:32:06: #1 finished! INFO @ Wed, 28 Jun 2017 04:32:06: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:32:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:32:07: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:32:07: 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 04:32:07: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 04:32:07: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:32:07: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:32:07: #1 total tags in treatment: 6360253 INFO @ Wed, 28 Jun 2017 04:32:07: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:32:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) cat: SRX1004417.10_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 `SRX1004417.10_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 `SRX1004417.10_*.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 `SRX1004417.10_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 04:32:07: #1 tags after filtering in treatment: 6360253 INFO @ Wed, 28 Jun 2017 04:32:07: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:32:07: #1 finished! INFO @ Wed, 28 Jun 2017 04:32:07: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:32:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:32:07: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:32:07: 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 04:32:07: Process for pairing-model is terminated! cat: SRX1004417.05_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 `SRX1004417.05_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 `SRX1004417.05_*.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 `SRX1004417.05_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。