Job ID = 9161764 sra ファイルのダウンロード中... Completed: 740746K bytes transferred in 9 seconds (642642K 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 18973283 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1038531/SRR2040154.sra Written 18973283 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: 00:03:14 18973283 reads; of these: 18973283 (100.00%) were unpaired; of these: 2141082 (11.28%) aligned 0 times 15040399 (79.27%) aligned exactly 1 time 1791802 (9.44%) aligned >1 times 88.72% overall alignment rate Time searching: 00:03:14 Overall time: 00:03:14 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] 7286809 / 16832201 = 0.4329 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 04:38:23: # Command line: callpeak -t SRX1038531.bam -f BAM -g 12100000 -n SRX1038531.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1038531.10 # format = BAM # ChIP-seq file = ['SRX1038531.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 04:38:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:38:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:38:23: # Command line: callpeak -t SRX1038531.bam -f BAM -g 12100000 -n SRX1038531.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1038531.20 # format = BAM # ChIP-seq file = ['SRX1038531.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 04:38:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:38:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:38:23: # Command line: callpeak -t SRX1038531.bam -f BAM -g 12100000 -n SRX1038531.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1038531.05 # format = BAM # ChIP-seq file = ['SRX1038531.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 04:38:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:38:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:38:29: 1000000 INFO @ Wed, 28 Jun 2017 04:38:29: 1000000 INFO @ Wed, 28 Jun 2017 04:38:29: 1000000 INFO @ Wed, 28 Jun 2017 04:38:36: 2000000 INFO @ Wed, 28 Jun 2017 04:38:36: 2000000 INFO @ Wed, 28 Jun 2017 04:38:36: 2000000 INFO @ Wed, 28 Jun 2017 04:38:42: 3000000 INFO @ Wed, 28 Jun 2017 04:38:43: 3000000 INFO @ Wed, 28 Jun 2017 04:38:43: 3000000 INFO @ Wed, 28 Jun 2017 04:38:49: 4000000 INFO @ Wed, 28 Jun 2017 04:38:49: 4000000 INFO @ Wed, 28 Jun 2017 04:38:49: 4000000 INFO @ Wed, 28 Jun 2017 04:38:56: 5000000 INFO @ Wed, 28 Jun 2017 04:38:56: 5000000 INFO @ Wed, 28 Jun 2017 04:38:56: 5000000 INFO @ Wed, 28 Jun 2017 04:39:02: 6000000 INFO @ Wed, 28 Jun 2017 04:39:02: 6000000 INFO @ Wed, 28 Jun 2017 04:39:03: 6000000 INFO @ Wed, 28 Jun 2017 04:39:09: 7000000 INFO @ Wed, 28 Jun 2017 04:39:09: 7000000 INFO @ Wed, 28 Jun 2017 04:39:10: 7000000 INFO @ Wed, 28 Jun 2017 04:39:16: 8000000 INFO @ Wed, 28 Jun 2017 04:39:16: 8000000 INFO @ Wed, 28 Jun 2017 04:39:17: 8000000 INFO @ Wed, 28 Jun 2017 04:39:22: 9000000 INFO @ Wed, 28 Jun 2017 04:39:23: 9000000 INFO @ Wed, 28 Jun 2017 04:39:25: 9000000 INFO @ Wed, 28 Jun 2017 04:39:26: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:39:26: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:39:26: #1 total tags in treatment: 9545392 INFO @ Wed, 28 Jun 2017 04:39:26: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:39:26: #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 04:39:26: #1 tags after filtering in treatment: 9545392 INFO @ Wed, 28 Jun 2017 04:39:26: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:39:26: #1 finished! INFO @ Wed, 28 Jun 2017 04:39:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:39:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:39:27: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:39:27: 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 04:39:27: Process for pairing-model is terminated! cat: SRX1038531.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1038531.10_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 `SRX1038531.10_*.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 `SRX1038531.10_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 04:39:27: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:39:27: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:39:27: #1 total tags in treatment: 9545392 INFO @ Wed, 28 Jun 2017 04:39:27: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:39:27: #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 04:39:27: #1 tags after filtering in treatment: 9545392 INFO @ Wed, 28 Jun 2017 04:39:27: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:39:27: #1 finished! INFO @ Wed, 28 Jun 2017 04:39:27: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:39:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:39:28: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:39:28: 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 04:39:28: Process for pairing-model is terminated! cat: SRX1038531.20_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 `SRX1038531.20_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 `SRX1038531.20_*.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 `SRX1038531.20_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 04:39:28: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:39:28: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:39:28: #1 total tags in treatment: 9545392 INFO @ Wed, 28 Jun 2017 04:39:28: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:39:28: #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 04:39:29: #1 tags after filtering in treatment: 9545392 INFO @ Wed, 28 Jun 2017 04:39:29: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:39:29: #1 finished! INFO @ Wed, 28 Jun 2017 04:39:29: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:39:29: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:39:29: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:39:29: 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 04:39:29: Process for pairing-model is terminated! cat: SRX1038531.05_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 `SRX1038531.05_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 `SRX1038531.05_*.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 `SRX1038531.05_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。