Job ID = 9162146 sra ファイルのダウンロード中... Completed: 1277289K bytes transferred in 13 seconds (804423K 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 16912696 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1702425/SRR3375890.sra Written 16912696 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: 00:09:58 16912696 reads; of these: 16912696 (100.00%) were unpaired; of these: 720889 (4.26%) aligned 0 times 14388286 (85.07%) aligned exactly 1 time 1803521 (10.66%) aligned >1 times 95.74% overall alignment rate Time searching: 00:09:58 Overall time: 00:09:58 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 12 files... [bam_rmdupse_core] 10487864 / 16191807 = 0.6477 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 06:33:17: # Command line: callpeak -t SRX1702425.bam -f BAM -g 12100000 -n SRX1702425.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1702425.20 # format = BAM # ChIP-seq file = ['SRX1702425.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 06:33:17: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:33:17: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:33:17: # Command line: callpeak -t SRX1702425.bam -f BAM -g 12100000 -n SRX1702425.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1702425.05 # format = BAM # ChIP-seq file = ['SRX1702425.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 06:33:17: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:33:17: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:33:17: # Command line: callpeak -t SRX1702425.bam -f BAM -g 12100000 -n SRX1702425.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1702425.10 # format = BAM # ChIP-seq file = ['SRX1702425.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 06:33:17: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:33:17: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:33:27: 1000000 INFO @ Wed, 28 Jun 2017 06:33:28: 1000000 INFO @ Wed, 28 Jun 2017 06:33:28: 1000000 INFO @ Wed, 28 Jun 2017 06:33:37: 2000000 INFO @ Wed, 28 Jun 2017 06:33:39: 2000000 INFO @ Wed, 28 Jun 2017 06:33:39: 2000000 INFO @ Wed, 28 Jun 2017 06:33:47: 3000000 INFO @ Wed, 28 Jun 2017 06:33:49: 3000000 INFO @ Wed, 28 Jun 2017 06:33:49: 3000000 INFO @ Wed, 28 Jun 2017 06:33:57: 4000000 INFO @ Wed, 28 Jun 2017 06:34:00: 4000000 INFO @ Wed, 28 Jun 2017 06:34:00: 4000000 INFO @ Wed, 28 Jun 2017 06:34:08: 5000000 INFO @ Wed, 28 Jun 2017 06:34:10: 5000000 INFO @ Wed, 28 Jun 2017 06:34:10: 5000000 INFO @ Wed, 28 Jun 2017 06:34:15: #1 tag size is determined as 144 bps INFO @ Wed, 28 Jun 2017 06:34:15: #1 tag size = 144 INFO @ Wed, 28 Jun 2017 06:34:15: #1 total tags in treatment: 5703943 INFO @ Wed, 28 Jun 2017 06:34:15: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:34:15: #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 06:34:15: #1 tags after filtering in treatment: 5703943 INFO @ Wed, 28 Jun 2017 06:34:15: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:34:15: #1 finished! INFO @ Wed, 28 Jun 2017 06:34:15: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:34:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:34:16: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:34:16: 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 06:34:16: Process for pairing-model is terminated! cat: SRX1702425.20_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 `SRX1702425.20_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 `SRX1702425.20_*.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 `SRX1702425.20_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 06:34:17: #1 tag size is determined as 144 bps INFO @ Wed, 28 Jun 2017 06:34:17: #1 tag size = 144 INFO @ Wed, 28 Jun 2017 06:34:17: #1 total tags in treatment: 5703943 INFO @ Wed, 28 Jun 2017 06:34:17: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:34:17: #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 06:34:17: #1 tag size is determined as 144 bps INFO @ Wed, 28 Jun 2017 06:34:17: #1 tag size = 144 INFO @ Wed, 28 Jun 2017 06:34:17: #1 total tags in treatment: 5703943 INFO @ Wed, 28 Jun 2017 06:34:17: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:34:17: #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 06:34:17: #1 tags after filtering in treatment: 5703943 INFO @ Wed, 28 Jun 2017 06:34:17: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:34:17: #1 finished! INFO @ Wed, 28 Jun 2017 06:34:17: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:34:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:34:17: #1 tags after filtering in treatment: 5703943 INFO @ Wed, 28 Jun 2017 06:34:17: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:34:17: #1 finished! INFO @ Wed, 28 Jun 2017 06:34:17: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:34:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:34:18: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:34:18: 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 06:34:18: Process for pairing-model is terminated! cat: SRX1702425.05_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 `SRX1702425.05_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 `SRX1702425.05_*.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 `SRX1702425.05_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 06:34:18: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:34:18: 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 06:34:18: Process for pairing-model is terminated! cat: SRX1702425.10_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 `SRX1702425.10_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 `SRX1702425.10_*.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 `SRX1702425.10_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。