Job ID = 11245092 sra ファイルのダウンロード中... Completed: 294668K bytes transferred in 6 seconds (369863K 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 17407397 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4590911/SRR7734552.sra Written 17407397 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4590911/SRR7734552.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: 00:02:49 17407397 reads; of these: 17407397 (100.00%) were unpaired; of these: 964638 (5.54%) aligned 0 times 14439449 (82.95%) aligned exactly 1 time 2003310 (11.51%) aligned >1 times 94.46% overall alignment rate Time searching: 00:02:49 Overall time: 00:02:49 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] 6925902 / 16442759 = 0.4212 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 23:27:17: # Command line: callpeak -t SRX4590911.bam -f BAM -g 12100000 -n SRX4590911.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4590911.10 # format = BAM # ChIP-seq file = ['SRX4590911.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 23:27:17: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:27:17: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:27:17: # Command line: callpeak -t SRX4590911.bam -f BAM -g 12100000 -n SRX4590911.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4590911.20 # format = BAM # ChIP-seq file = ['SRX4590911.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 23:27:17: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:27:17: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:27:17: # Command line: callpeak -t SRX4590911.bam -f BAM -g 12100000 -n SRX4590911.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4590911.05 # format = BAM # ChIP-seq file = ['SRX4590911.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 23:27:17: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:27:17: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:27:23: 1000000 INFO @ Tue, 09 Oct 2018 23:27:23: 1000000 INFO @ Tue, 09 Oct 2018 23:27:23: 1000000 INFO @ Tue, 09 Oct 2018 23:27:29: 2000000 INFO @ Tue, 09 Oct 2018 23:27:29: 2000000 INFO @ Tue, 09 Oct 2018 23:27:29: 2000000 INFO @ Tue, 09 Oct 2018 23:27:35: 3000000 INFO @ Tue, 09 Oct 2018 23:27:35: 3000000 INFO @ Tue, 09 Oct 2018 23:27:36: 3000000 INFO @ Tue, 09 Oct 2018 23:27:41: 4000000 INFO @ Tue, 09 Oct 2018 23:27:41: 4000000 INFO @ Tue, 09 Oct 2018 23:27:42: 4000000 INFO @ Tue, 09 Oct 2018 23:27:46: 5000000 INFO @ Tue, 09 Oct 2018 23:27:47: 5000000 INFO @ Tue, 09 Oct 2018 23:27:48: 5000000 INFO @ Tue, 09 Oct 2018 23:27:52: 6000000 INFO @ Tue, 09 Oct 2018 23:27:53: 6000000 INFO @ Tue, 09 Oct 2018 23:27:55: 6000000 INFO @ Tue, 09 Oct 2018 23:27:58: 7000000 INFO @ Tue, 09 Oct 2018 23:27:59: 7000000 INFO @ Tue, 09 Oct 2018 23:28:01: 7000000 INFO @ Tue, 09 Oct 2018 23:28:04: 8000000 INFO @ Tue, 09 Oct 2018 23:28:05: 8000000 INFO @ Tue, 09 Oct 2018 23:28:07: 8000000 INFO @ Tue, 09 Oct 2018 23:28:10: 9000000 INFO @ Tue, 09 Oct 2018 23:28:11: 9000000 INFO @ Tue, 09 Oct 2018 23:28:13: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:28:13: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:28:13: #1 total tags in treatment: 9516857 INFO @ Tue, 09 Oct 2018 23:28:13: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:28:13: #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 23:28:13: 9000000 INFO @ Tue, 09 Oct 2018 23:28:13: #1 tags after filtering in treatment: 9516857 INFO @ Tue, 09 Oct 2018 23:28:13: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 23:28:13: #1 finished! INFO @ Tue, 09 Oct 2018 23:28:13: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:28:13: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:28:14: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:28:14: 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 23:28:14: Process for pairing-model is terminated! cat: SRX4590911.20_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 `SRX4590911.20_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 `SRX4590911.20_*.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 `SRX4590911.20_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 @ Tue, 09 Oct 2018 23:28:14: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:28:14: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:28:14: #1 total tags in treatment: 9516857 INFO @ Tue, 09 Oct 2018 23:28:14: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:28:14: #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 23:28:14: #1 tags after filtering in treatment: 9516857 INFO @ Tue, 09 Oct 2018 23:28:14: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 23:28:14: #1 finished! INFO @ Tue, 09 Oct 2018 23:28:14: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:28:14: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:28:15: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:28:15: 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 23:28:15: Process for pairing-model is terminated! cat: SRX4590911.05_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 `SRX4590911.05_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 `SRX4590911.05_*.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 `SRX4590911.05_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 23:28:16: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:28:16: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:28:16: #1 total tags in treatment: 9516857 INFO @ Tue, 09 Oct 2018 23:28:16: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:28:16: #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 23:28:16: #1 tags after filtering in treatment: 9516857 INFO @ Tue, 09 Oct 2018 23:28:16: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 23:28:16: #1 finished! INFO @ Tue, 09 Oct 2018 23:28:16: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:28:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:28:17: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:28:17: 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 23:28:17: Process for pairing-model is terminated! cat: SRX4590911.10_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 `SRX4590911.10_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 `SRX4590911.10_*.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 `SRX4590911.10_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。