Job ID = 10851110 sra ファイルのダウンロード中... Completed: 354667K bytes transferred in 6 seconds (460706K bits/sec), in 1 file. 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... Read 20202012 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3748400/SRR6789150.sra Written 20202012 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3748400/SRR6789150.sra rm: cannot remove `[DSE]RX*': 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 `[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: 00:04:36 20202012 reads; of these: 20202012 (100.00%) were unpaired; of these: 4385434 (21.71%) aligned 0 times 13894285 (68.78%) aligned exactly 1 time 1922293 (9.52%) aligned >1 times 78.29% overall alignment rate Time searching: 00:04:36 Overall time: 00:04:36 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] 5492706 / 15816578 = 0.3473 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 @ Thu, 05 Jul 2018 22:55:35: # Command line: callpeak -t SRX3748400.bam -f BAM -g 12100000 -n SRX3748400.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3748400.20 # format = BAM # ChIP-seq file = ['SRX3748400.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 @ Thu, 05 Jul 2018 22:55:35: # Command line: callpeak -t SRX3748400.bam -f BAM -g 12100000 -n SRX3748400.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3748400.05 # format = BAM # ChIP-seq file = ['SRX3748400.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 @ Thu, 05 Jul 2018 22:55:35: #1 read tag files... INFO @ Thu, 05 Jul 2018 22:55:35: #1 read treatment tags... INFO @ Thu, 05 Jul 2018 22:55:35: #1 read tag files... INFO @ Thu, 05 Jul 2018 22:55:35: #1 read treatment tags... INFO @ Thu, 05 Jul 2018 22:55:35: # Command line: callpeak -t SRX3748400.bam -f BAM -g 12100000 -n SRX3748400.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3748400.10 # format = BAM # ChIP-seq file = ['SRX3748400.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 @ Thu, 05 Jul 2018 22:55:35: #1 read tag files... INFO @ Thu, 05 Jul 2018 22:55:35: #1 read treatment tags... INFO @ Thu, 05 Jul 2018 22:55:44: 1000000 INFO @ Thu, 05 Jul 2018 22:55:45: 1000000 INFO @ Thu, 05 Jul 2018 22:55:47: 1000000 INFO @ Thu, 05 Jul 2018 22:55:54: 2000000 INFO @ Thu, 05 Jul 2018 22:55:54: 2000000 INFO @ Thu, 05 Jul 2018 22:55:58: 2000000 INFO @ Thu, 05 Jul 2018 22:56:03: 3000000 INFO @ Thu, 05 Jul 2018 22:56:04: 3000000 INFO @ Thu, 05 Jul 2018 22:56:10: 3000000 INFO @ Thu, 05 Jul 2018 22:56:12: 4000000 INFO @ Thu, 05 Jul 2018 22:56:14: 4000000 INFO @ Thu, 05 Jul 2018 22:56:21: 5000000 INFO @ Thu, 05 Jul 2018 22:56:22: 4000000 INFO @ Thu, 05 Jul 2018 22:56:24: 5000000 INFO @ Thu, 05 Jul 2018 22:56:30: 6000000 INFO @ Thu, 05 Jul 2018 22:56:34: 5000000 INFO @ Thu, 05 Jul 2018 22:56:34: 6000000 INFO @ Thu, 05 Jul 2018 22:56:40: 7000000 INFO @ Thu, 05 Jul 2018 22:56:44: 7000000 INFO @ Thu, 05 Jul 2018 22:56:45: 6000000 INFO @ Thu, 05 Jul 2018 22:56:49: 8000000 INFO @ Thu, 05 Jul 2018 22:56:54: 8000000 INFO @ Thu, 05 Jul 2018 22:56:57: 7000000 INFO @ Thu, 05 Jul 2018 22:56:58: 9000000 INFO @ Thu, 05 Jul 2018 22:57:04: 9000000 INFO @ Thu, 05 Jul 2018 22:57:07: 10000000 INFO @ Thu, 05 Jul 2018 22:57:09: 8000000 INFO @ Thu, 05 Jul 2018 22:57:10: #1 tag size is determined as 51 bps INFO @ Thu, 05 Jul 2018 22:57:10: #1 tag size = 51 INFO @ Thu, 05 Jul 2018 22:57:10: #1 total tags in treatment: 10323872 INFO @ Thu, 05 Jul 2018 22:57:10: #1 user defined the maximum tags... INFO @ Thu, 05 Jul 2018 22:57:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Jul 2018 22:57:10: #1 tags after filtering in treatment: 10323872 INFO @ Thu, 05 Jul 2018 22:57:10: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Jul 2018 22:57:10: #1 finished! INFO @ Thu, 05 Jul 2018 22:57:10: #2 Build Peak Model... INFO @ Thu, 05 Jul 2018 22:57:10: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Jul 2018 22:57:11: #2 number of paired peaks: 0 WARNING @ Thu, 05 Jul 2018 22:57:11: 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 @ Thu, 05 Jul 2018 22:57:11: Process for pairing-model is terminated! cat: SRX3748400.10_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 `SRX3748400.10_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 `SRX3748400.10_*.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 `SRX3748400.10_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 @ Thu, 05 Jul 2018 22:57:14: 10000000 INFO @ Thu, 05 Jul 2018 22:57:17: #1 tag size is determined as 51 bps INFO @ Thu, 05 Jul 2018 22:57:17: #1 tag size = 51 INFO @ Thu, 05 Jul 2018 22:57:17: #1 total tags in treatment: 10323872 INFO @ Thu, 05 Jul 2018 22:57:17: #1 user defined the maximum tags... INFO @ Thu, 05 Jul 2018 22:57:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Jul 2018 22:57:17: #1 tags after filtering in treatment: 10323872 INFO @ Thu, 05 Jul 2018 22:57:17: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Jul 2018 22:57:17: #1 finished! INFO @ Thu, 05 Jul 2018 22:57:17: #2 Build Peak Model... INFO @ Thu, 05 Jul 2018 22:57:17: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Jul 2018 22:57:18: #2 number of paired peaks: 0 WARNING @ Thu, 05 Jul 2018 22:57:18: 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 @ Thu, 05 Jul 2018 22:57:18: Process for pairing-model is terminated! cat: SRX3748400.05_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 `SRX3748400.05_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 `SRX3748400.05_*.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 `SRX3748400.05_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 @ Thu, 05 Jul 2018 22:57:20: 9000000 INFO @ Thu, 05 Jul 2018 22:57:31: 10000000 INFO @ Thu, 05 Jul 2018 22:57:35: #1 tag size is determined as 51 bps INFO @ Thu, 05 Jul 2018 22:57:35: #1 tag size = 51 INFO @ Thu, 05 Jul 2018 22:57:35: #1 total tags in treatment: 10323872 INFO @ Thu, 05 Jul 2018 22:57:35: #1 user defined the maximum tags... INFO @ Thu, 05 Jul 2018 22:57:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Jul 2018 22:57:35: #1 tags after filtering in treatment: 10323872 INFO @ Thu, 05 Jul 2018 22:57:35: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Jul 2018 22:57:35: #1 finished! INFO @ Thu, 05 Jul 2018 22:57:35: #2 Build Peak Model... INFO @ Thu, 05 Jul 2018 22:57:35: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Jul 2018 22:57:36: #2 number of paired peaks: 0 WARNING @ Thu, 05 Jul 2018 22:57:36: 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 @ Thu, 05 Jul 2018 22:57:36: Process for pairing-model is terminated! cat: SRX3748400.20_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 `SRX3748400.20_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 `SRX3748400.20_*.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 `SRX3748400.20_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。