Job ID = 11245088 sra ファイルのダウンロード中... Completed: 294420K bytes transferred in 6 seconds (393464K 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 17426973 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4590908/SRR7734549.sra Written 17426973 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4590908/SRR7734549.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: 00:03:18 17426973 reads; of these: 17426973 (100.00%) were unpaired; of these: 803937 (4.61%) aligned 0 times 14586593 (83.70%) aligned exactly 1 time 2036443 (11.69%) aligned >1 times 95.39% overall alignment rate Time searching: 00:03:18 Overall time: 00:03:18 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] 7488792 / 16623036 = 0.4505 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 @ Tue, 09 Oct 2018 23:27:27: # Command line: callpeak -t SRX4590908.bam -f BAM -g 12100000 -n SRX4590908.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4590908.10 # format = BAM # ChIP-seq file = ['SRX4590908.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 @ Tue, 09 Oct 2018 23:27:27: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:27:27: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:27:27: # Command line: callpeak -t SRX4590908.bam -f BAM -g 12100000 -n SRX4590908.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4590908.05 # format = BAM # ChIP-seq file = ['SRX4590908.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 @ Tue, 09 Oct 2018 23:27:27: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:27:27: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:27:27: # Command line: callpeak -t SRX4590908.bam -f BAM -g 12100000 -n SRX4590908.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4590908.20 # format = BAM # ChIP-seq file = ['SRX4590908.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 @ Tue, 09 Oct 2018 23:27:27: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:27:27: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:27:33: 1000000 INFO @ Tue, 09 Oct 2018 23:27:33: 1000000 INFO @ Tue, 09 Oct 2018 23:27:33: 1000000 INFO @ Tue, 09 Oct 2018 23:27:39: 2000000 INFO @ Tue, 09 Oct 2018 23:27:39: 2000000 INFO @ Tue, 09 Oct 2018 23:27:40: 2000000 INFO @ Tue, 09 Oct 2018 23:27:45: 3000000 INFO @ Tue, 09 Oct 2018 23:27:46: 3000000 INFO @ Tue, 09 Oct 2018 23:27:46: 3000000 INFO @ Tue, 09 Oct 2018 23:27:51: 4000000 INFO @ Tue, 09 Oct 2018 23:27:52: 4000000 INFO @ Tue, 09 Oct 2018 23:27:52: 4000000 INFO @ Tue, 09 Oct 2018 23:27:57: 5000000 INFO @ Tue, 09 Oct 2018 23:27:58: 5000000 INFO @ Tue, 09 Oct 2018 23:27:58: 5000000 INFO @ Tue, 09 Oct 2018 23:28:03: 6000000 INFO @ Tue, 09 Oct 2018 23:28:05: 6000000 INFO @ Tue, 09 Oct 2018 23:28:05: 6000000 INFO @ Tue, 09 Oct 2018 23:28:08: 7000000 INFO @ Tue, 09 Oct 2018 23:28:11: 7000000 INFO @ Tue, 09 Oct 2018 23:28:11: 7000000 INFO @ Tue, 09 Oct 2018 23:28:14: 8000000 INFO @ Tue, 09 Oct 2018 23:28:17: 8000000 INFO @ Tue, 09 Oct 2018 23:28:18: 8000000 INFO @ Tue, 09 Oct 2018 23:28:20: 9000000 INFO @ Tue, 09 Oct 2018 23:28:21: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:28:21: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:28:21: #1 total tags in treatment: 9134244 INFO @ Tue, 09 Oct 2018 23:28:21: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:28:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:28:21: #1 tags after filtering in treatment: 9134244 INFO @ Tue, 09 Oct 2018 23:28:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 23:28:21: #1 finished! INFO @ Tue, 09 Oct 2018 23:28:21: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:28:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:28:22: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:28:22: 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 @ Tue, 09 Oct 2018 23:28:22: Process for pairing-model is terminated! cat: SRX4590908.10_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 `SRX4590908.10_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 `SRX4590908.10_*.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 `SRX4590908.10_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 @ Tue, 09 Oct 2018 23:28:24: 9000000 INFO @ Tue, 09 Oct 2018 23:28:25: 9000000 INFO @ Tue, 09 Oct 2018 23:28:25: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:28:25: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:28:25: #1 total tags in treatment: 9134244 INFO @ Tue, 09 Oct 2018 23:28:25: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:28:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:28:25: #1 tags after filtering in treatment: 9134244 INFO @ Tue, 09 Oct 2018 23:28:25: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 23:28:25: #1 finished! INFO @ Tue, 09 Oct 2018 23:28:25: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:28:25: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:28:25: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:28:25: 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 @ Tue, 09 Oct 2018 23:28:25: Process for pairing-model is terminated! cat: SRX4590908.05_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 `SRX4590908.05_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 `SRX4590908.05_*.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 `SRX4590908.05_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 @ Tue, 09 Oct 2018 23:28:25: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:28:25: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:28:25: #1 total tags in treatment: 9134244 INFO @ Tue, 09 Oct 2018 23:28:25: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:28:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:28:26: #1 tags after filtering in treatment: 9134244 INFO @ Tue, 09 Oct 2018 23:28:26: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 23:28:26: #1 finished! INFO @ Tue, 09 Oct 2018 23:28:26: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:28:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:28:26: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:28:26: 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 @ Tue, 09 Oct 2018 23:28:26: Process for pairing-model is terminated! cat: SRX4590908.20_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 `SRX4590908.20_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 `SRX4590908.20_*.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 `SRX4590908.20_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。