Job ID = 10851112 sra ファイルのダウンロード中... Completed: 295001K bytes transferred in 20 seconds (117530K 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 16723137 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3748402/SRR6789152.sra Written 16723137 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3748402/SRR6789152.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: 00:04:11 16723137 reads; of these: 16723137 (100.00%) were unpaired; of these: 1055960 (6.31%) aligned 0 times 13501536 (80.74%) aligned exactly 1 time 2165641 (12.95%) aligned >1 times 93.69% overall alignment rate Time searching: 00:04:11 Overall time: 00:04:11 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] 5162887 / 15667177 = 0.3295 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 22:56:22: # Command line: callpeak -t SRX3748402.bam -f BAM -g 12100000 -n SRX3748402.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3748402.10 # format = BAM # ChIP-seq file = ['SRX3748402.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 22:56:22: #1 read tag files... INFO @ Thu, 05 Jul 2018 22:56:22: #1 read treatment tags... INFO @ Thu, 05 Jul 2018 22:56:23: # Command line: callpeak -t SRX3748402.bam -f BAM -g 12100000 -n SRX3748402.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3748402.20 # format = BAM # ChIP-seq file = ['SRX3748402.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 22:56:23: #1 read tag files... INFO @ Thu, 05 Jul 2018 22:56:23: #1 read treatment tags... INFO @ Thu, 05 Jul 2018 22:56:23: # Command line: callpeak -t SRX3748402.bam -f BAM -g 12100000 -n SRX3748402.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3748402.05 # format = BAM # ChIP-seq file = ['SRX3748402.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 22:56:23: #1 read tag files... INFO @ Thu, 05 Jul 2018 22:56:23: #1 read treatment tags... INFO @ Thu, 05 Jul 2018 22:56:30: 1000000 INFO @ Thu, 05 Jul 2018 22:56:31: 1000000 INFO @ Thu, 05 Jul 2018 22:56:33: 1000000 INFO @ Thu, 05 Jul 2018 22:56:39: 2000000 INFO @ Thu, 05 Jul 2018 22:56:39: 2000000 INFO @ Thu, 05 Jul 2018 22:56:43: 2000000 INFO @ Thu, 05 Jul 2018 22:56:48: 3000000 INFO @ Thu, 05 Jul 2018 22:56:49: 3000000 INFO @ Thu, 05 Jul 2018 22:56:53: 3000000 INFO @ Thu, 05 Jul 2018 22:56:58: 4000000 INFO @ Thu, 05 Jul 2018 22:56:58: 4000000 INFO @ Thu, 05 Jul 2018 22:57:01: 4000000 INFO @ Thu, 05 Jul 2018 22:57:08: 5000000 INFO @ Thu, 05 Jul 2018 22:57:08: 5000000 INFO @ Thu, 05 Jul 2018 22:57:10: 5000000 INFO @ Thu, 05 Jul 2018 22:57:17: 6000000 INFO @ Thu, 05 Jul 2018 22:57:17: 6000000 INFO @ Thu, 05 Jul 2018 22:57:18: 6000000 INFO @ Thu, 05 Jul 2018 22:57:25: 7000000 INFO @ Thu, 05 Jul 2018 22:57:26: 7000000 INFO @ Thu, 05 Jul 2018 22:57:27: 7000000 INFO @ Thu, 05 Jul 2018 22:57:35: 8000000 INFO @ Thu, 05 Jul 2018 22:57:36: 8000000 INFO @ Thu, 05 Jul 2018 22:57:37: 8000000 INFO @ Thu, 05 Jul 2018 22:57:44: 9000000 INFO @ Thu, 05 Jul 2018 22:57:45: 9000000 INFO @ Thu, 05 Jul 2018 22:57:46: 9000000 INFO @ Thu, 05 Jul 2018 22:57:53: 10000000 INFO @ Thu, 05 Jul 2018 22:57:54: 10000000 INFO @ Thu, 05 Jul 2018 22:57:57: 10000000 INFO @ Thu, 05 Jul 2018 22:57:57: #1 tag size is determined as 51 bps INFO @ Thu, 05 Jul 2018 22:57:57: #1 tag size = 51 INFO @ Thu, 05 Jul 2018 22:57:57: #1 total tags in treatment: 10504290 INFO @ Thu, 05 Jul 2018 22:57:57: #1 user defined the maximum tags... INFO @ Thu, 05 Jul 2018 22:57:57: #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 22:57:57: #1 tags after filtering in treatment: 10504290 INFO @ Thu, 05 Jul 2018 22:57:57: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Jul 2018 22:57:57: #1 finished! INFO @ Thu, 05 Jul 2018 22:57:57: #2 Build Peak Model... INFO @ Thu, 05 Jul 2018 22:57:57: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Jul 2018 22:57:58: #2 number of paired peaks: 0 WARNING @ Thu, 05 Jul 2018 22:57:58: 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 22:57:58: Process for pairing-model is terminated! cat: SRX3748402.05_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 `SRX3748402.05_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 `SRX3748402.05_*.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 `SRX3748402.05_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 22:57:59: #1 tag size is determined as 51 bps INFO @ Thu, 05 Jul 2018 22:57:59: #1 tag size = 51 INFO @ Thu, 05 Jul 2018 22:57:59: #1 total tags in treatment: 10504290 INFO @ Thu, 05 Jul 2018 22:57:59: #1 user defined the maximum tags... INFO @ Thu, 05 Jul 2018 22:57:59: #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 22:57:59: #1 tags after filtering in treatment: 10504290 INFO @ Thu, 05 Jul 2018 22:57:59: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Jul 2018 22:57:59: #1 finished! INFO @ Thu, 05 Jul 2018 22:57:59: #2 Build Peak Model... INFO @ Thu, 05 Jul 2018 22:57:59: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Jul 2018 22:58:00: #2 number of paired peaks: 0 WARNING @ Thu, 05 Jul 2018 22:58:00: 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 22:58:00: Process for pairing-model is terminated! cat: SRX3748402.20_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 `SRX3748402.20_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 `SRX3748402.20_*.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 `SRX3748402.20_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 @ Thu, 05 Jul 2018 22:58:01: #1 tag size is determined as 51 bps INFO @ Thu, 05 Jul 2018 22:58:01: #1 tag size = 51 INFO @ Thu, 05 Jul 2018 22:58:01: #1 total tags in treatment: 10504290 INFO @ Thu, 05 Jul 2018 22:58:01: #1 user defined the maximum tags... INFO @ Thu, 05 Jul 2018 22:58:01: #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 22:58:01: #1 tags after filtering in treatment: 10504290 INFO @ Thu, 05 Jul 2018 22:58:01: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Jul 2018 22:58:01: #1 finished! INFO @ Thu, 05 Jul 2018 22:58:01: #2 Build Peak Model... INFO @ Thu, 05 Jul 2018 22:58:01: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Jul 2018 22:58:02: #2 number of paired peaks: 0 WARNING @ Thu, 05 Jul 2018 22:58:02: 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 22:58:02: Process for pairing-model is terminated! cat: SRX3748402.10_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 `SRX3748402.10_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 `SRX3748402.10_*.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 `SRX3748402.10_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。