Job ID = 10937687 sra ファイルのダウンロード中... Completed: 361964K bytes transferred in 13 seconds (225608K 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 11049621 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3463330/SRR6367869.sra Written 11049621 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3463330/SRR6367869.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: 00:02:14 11049621 reads; of these: 11049621 (100.00%) were unpaired; of these: 1008353 (9.13%) aligned 0 times 8889573 (80.45%) aligned exactly 1 time 1151695 (10.42%) aligned >1 times 90.87% overall alignment rate Time searching: 00:02:14 Overall time: 00:02:14 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] 2970038 / 10041268 = 0.2958 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 @ Fri, 10 Aug 2018 02:54:34: # Command line: callpeak -t SRX3463330.bam -f BAM -g 12100000 -n SRX3463330.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3463330.10 # format = BAM # ChIP-seq file = ['SRX3463330.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 @ Fri, 10 Aug 2018 02:54:34: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:54:34: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:54:34: # Command line: callpeak -t SRX3463330.bam -f BAM -g 12100000 -n SRX3463330.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3463330.05 # format = BAM # ChIP-seq file = ['SRX3463330.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 @ Fri, 10 Aug 2018 02:54:34: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:54:34: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:54:34: # Command line: callpeak -t SRX3463330.bam -f BAM -g 12100000 -n SRX3463330.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3463330.20 # format = BAM # ChIP-seq file = ['SRX3463330.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 @ Fri, 10 Aug 2018 02:54:34: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:54:34: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:54:40: 1000000 INFO @ Fri, 10 Aug 2018 02:54:41: 1000000 INFO @ Fri, 10 Aug 2018 02:54:41: 1000000 INFO @ Fri, 10 Aug 2018 02:54:47: 2000000 INFO @ Fri, 10 Aug 2018 02:54:48: 2000000 INFO @ Fri, 10 Aug 2018 02:54:49: 2000000 INFO @ Fri, 10 Aug 2018 02:54:55: 3000000 INFO @ Fri, 10 Aug 2018 02:54:56: 3000000 INFO @ Fri, 10 Aug 2018 02:54:57: 3000000 INFO @ Fri, 10 Aug 2018 02:55:02: 4000000 INFO @ Fri, 10 Aug 2018 02:55:04: 4000000 INFO @ Fri, 10 Aug 2018 02:55:04: 4000000 INFO @ Fri, 10 Aug 2018 02:55:09: 5000000 INFO @ Fri, 10 Aug 2018 02:55:11: 5000000 INFO @ Fri, 10 Aug 2018 02:55:12: 5000000 INFO @ Fri, 10 Aug 2018 02:55:16: 6000000 INFO @ Fri, 10 Aug 2018 02:55:18: 6000000 INFO @ Fri, 10 Aug 2018 02:55:20: 6000000 INFO @ Fri, 10 Aug 2018 02:55:24: 7000000 INFO @ Fri, 10 Aug 2018 02:55:24: #1 tag size is determined as 51 bps INFO @ Fri, 10 Aug 2018 02:55:24: #1 tag size = 51 INFO @ Fri, 10 Aug 2018 02:55:24: #1 total tags in treatment: 7071230 INFO @ Fri, 10 Aug 2018 02:55:24: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:55:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:55:24: #1 tags after filtering in treatment: 7071230 INFO @ Fri, 10 Aug 2018 02:55:24: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:55:24: #1 finished! INFO @ Fri, 10 Aug 2018 02:55:24: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:55:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:55:25: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 02:55:25: 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 @ Fri, 10 Aug 2018 02:55:25: Process for pairing-model is terminated! cat: SRX3463330.05_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 `SRX3463330.05_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 `SRX3463330.05_*.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 `SRX3463330.05_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 @ Fri, 10 Aug 2018 02:55:26: 7000000 INFO @ Fri, 10 Aug 2018 02:55:27: #1 tag size is determined as 51 bps INFO @ Fri, 10 Aug 2018 02:55:27: #1 tag size = 51 INFO @ Fri, 10 Aug 2018 02:55:27: #1 total tags in treatment: 7071230 INFO @ Fri, 10 Aug 2018 02:55:27: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:55:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:55:27: #1 tags after filtering in treatment: 7071230 INFO @ Fri, 10 Aug 2018 02:55:27: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:55:27: #1 finished! INFO @ Fri, 10 Aug 2018 02:55:27: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:55:27: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:55:27: 7000000 INFO @ Fri, 10 Aug 2018 02:55:27: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 02:55:27: 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 @ Fri, 10 Aug 2018 02:55:27: Process for pairing-model is terminated! cat: SRX3463330.10_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 `SRX3463330.10_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 `SRX3463330.10_*.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 `SRX3463330.10_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 @ Fri, 10 Aug 2018 02:55:28: #1 tag size is determined as 51 bps INFO @ Fri, 10 Aug 2018 02:55:28: #1 tag size = 51 INFO @ Fri, 10 Aug 2018 02:55:28: #1 total tags in treatment: 7071230 INFO @ Fri, 10 Aug 2018 02:55:28: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:55:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:55:28: #1 tags after filtering in treatment: 7071230 INFO @ Fri, 10 Aug 2018 02:55:28: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:55:28: #1 finished! INFO @ Fri, 10 Aug 2018 02:55:28: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:55:28: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:55:28: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 02:55:28: 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 @ Fri, 10 Aug 2018 02:55:28: Process for pairing-model is terminated! cat: SRX3463330.20_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 `SRX3463330.20_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 `SRX3463330.20_*.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 `SRX3463330.20_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。