Job ID = 10714396 sra ファイルのダウンロード中... Completed: 433655K bytes transferred in 11 seconds (305018K 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 19907659 spots for /home/okishinya/chipatlas/results/ce10/SRX4082356/SRR7164174.sra Written 19907659 spots for /home/okishinya/chipatlas/results/ce10/SRX4082356/SRR7164174.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: 00:05:08 19907659 reads; of these: 19907659 (100.00%) were unpaired; of these: 345153 (1.73%) aligned 0 times 16882090 (84.80%) aligned exactly 1 time 2680416 (13.46%) aligned >1 times 98.27% overall alignment rate Time searching: 00:05:08 Overall time: 00:05:08 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 3318490 / 19562506 = 0.1696 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 @ Sun, 03 Jun 2018 12:39:40: # Command line: callpeak -t SRX4082356.bam -f BAM -g ce -n SRX4082356.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4082356.10 # format = BAM # ChIP-seq file = ['SRX4082356.bam'] # control file = None # effective genome size = 9.00e+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 @ Sun, 03 Jun 2018 12:39:40: # Command line: callpeak -t SRX4082356.bam -f BAM -g ce -n SRX4082356.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4082356.20 # format = BAM # ChIP-seq file = ['SRX4082356.bam'] # control file = None # effective genome size = 9.00e+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 @ Sun, 03 Jun 2018 12:39:40: # Command line: callpeak -t SRX4082356.bam -f BAM -g ce -n SRX4082356.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4082356.05 # format = BAM # ChIP-seq file = ['SRX4082356.bam'] # control file = None # effective genome size = 9.00e+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 @ Sun, 03 Jun 2018 12:39:40: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:39:40: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:39:40: #1 read tag files... INFO @ Sun, 03 Jun 2018 12:39:40: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:39:40: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:39:40: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 12:39:46: 1000000 INFO @ Sun, 03 Jun 2018 12:39:46: 1000000 INFO @ Sun, 03 Jun 2018 12:39:46: 1000000 INFO @ Sun, 03 Jun 2018 12:39:52: 2000000 INFO @ Sun, 03 Jun 2018 12:39:52: 2000000 INFO @ Sun, 03 Jun 2018 12:39:52: 2000000 INFO @ Sun, 03 Jun 2018 12:39:59: 3000000 INFO @ Sun, 03 Jun 2018 12:39:59: 3000000 INFO @ Sun, 03 Jun 2018 12:39:59: 3000000 INFO @ Sun, 03 Jun 2018 12:40:05: 4000000 INFO @ Sun, 03 Jun 2018 12:40:05: 4000000 INFO @ Sun, 03 Jun 2018 12:40:05: 4000000 INFO @ Sun, 03 Jun 2018 12:40:11: 5000000 INFO @ Sun, 03 Jun 2018 12:40:12: 5000000 INFO @ Sun, 03 Jun 2018 12:40:12: 5000000 INFO @ Sun, 03 Jun 2018 12:40:17: 6000000 INFO @ Sun, 03 Jun 2018 12:40:18: 6000000 INFO @ Sun, 03 Jun 2018 12:40:18: 6000000 INFO @ Sun, 03 Jun 2018 12:40:24: 7000000 INFO @ Sun, 03 Jun 2018 12:40:25: 7000000 INFO @ Sun, 03 Jun 2018 12:40:25: 7000000 INFO @ Sun, 03 Jun 2018 12:40:30: 8000000 INFO @ Sun, 03 Jun 2018 12:40:31: 8000000 INFO @ Sun, 03 Jun 2018 12:40:31: 8000000 INFO @ Sun, 03 Jun 2018 12:40:36: 9000000 INFO @ Sun, 03 Jun 2018 12:40:38: 9000000 INFO @ Sun, 03 Jun 2018 12:40:38: 9000000 INFO @ Sun, 03 Jun 2018 12:40:43: 10000000 INFO @ Sun, 03 Jun 2018 12:40:45: 10000000 INFO @ Sun, 03 Jun 2018 12:40:45: 10000000 INFO @ Sun, 03 Jun 2018 12:40:49: 11000000 INFO @ Sun, 03 Jun 2018 12:40:52: 11000000 INFO @ Sun, 03 Jun 2018 12:40:52: 11000000 INFO @ Sun, 03 Jun 2018 12:40:55: 12000000 INFO @ Sun, 03 Jun 2018 12:40:59: 12000000 INFO @ Sun, 03 Jun 2018 12:40:59: 12000000 INFO @ Sun, 03 Jun 2018 12:41:02: 13000000 INFO @ Sun, 03 Jun 2018 12:41:07: 13000000 INFO @ Sun, 03 Jun 2018 12:41:07: 13000000 INFO @ Sun, 03 Jun 2018 12:41:08: 14000000 INFO @ Sun, 03 Jun 2018 12:41:14: 14000000 INFO @ Sun, 03 Jun 2018 12:41:14: 14000000 INFO @ Sun, 03 Jun 2018 12:41:15: 15000000 INFO @ Sun, 03 Jun 2018 12:41:21: 16000000 INFO @ Sun, 03 Jun 2018 12:41:21: 15000000 INFO @ Sun, 03 Jun 2018 12:41:21: 15000000 INFO @ Sun, 03 Jun 2018 12:41:23: #1 tag size is determined as 50 bps INFO @ Sun, 03 Jun 2018 12:41:23: #1 tag size = 50 INFO @ Sun, 03 Jun 2018 12:41:23: #1 total tags in treatment: 16244016 INFO @ Sun, 03 Jun 2018 12:41:23: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 12:41:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Jun 2018 12:41:23: #1 tags after filtering in treatment: 16244016 INFO @ Sun, 03 Jun 2018 12:41:23: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 12:41:23: #1 finished! INFO @ Sun, 03 Jun 2018 12:41:23: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 12:41:23: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 12:41:24: #2 number of paired peaks: 90 WARNING @ Sun, 03 Jun 2018 12:41:24: Too few paired peaks (90) 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 @ Sun, 03 Jun 2018 12:41:24: Process for pairing-model is terminated! cat: SRX4082356.10_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 `SRX4082356.10_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 `SRX4082356.10_*.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 `SRX4082356.10_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 @ Sun, 03 Jun 2018 12:41:28: 16000000 INFO @ Sun, 03 Jun 2018 12:41:28: 16000000 INFO @ Sun, 03 Jun 2018 12:41:30: #1 tag size is determined as 50 bps INFO @ Sun, 03 Jun 2018 12:41:30: #1 tag size = 50 INFO @ Sun, 03 Jun 2018 12:41:30: #1 total tags in treatment: 16244016 INFO @ Sun, 03 Jun 2018 12:41:30: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 12:41:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Jun 2018 12:41:30: #1 tag size is determined as 50 bps INFO @ Sun, 03 Jun 2018 12:41:30: #1 tag size = 50 INFO @ Sun, 03 Jun 2018 12:41:30: #1 total tags in treatment: 16244016 INFO @ Sun, 03 Jun 2018 12:41:30: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 12:41:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Jun 2018 12:41:31: #1 tags after filtering in treatment: 16244016 INFO @ Sun, 03 Jun 2018 12:41:31: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 12:41:31: #1 finished! INFO @ Sun, 03 Jun 2018 12:41:31: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 12:41:31: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 12:41:31: #1 tags after filtering in treatment: 16244016 INFO @ Sun, 03 Jun 2018 12:41:31: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 12:41:31: #1 finished! INFO @ Sun, 03 Jun 2018 12:41:31: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 12:41:31: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 12:41:32: #2 number of paired peaks: 90 WARNING @ Sun, 03 Jun 2018 12:41:32: Too few paired peaks (90) 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 @ Sun, 03 Jun 2018 12:41:32: Process for pairing-model is terminated! cat: SRX4082356.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4082356.20_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 `SRX4082356.20_*.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 `SRX4082356.20_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 @ Sun, 03 Jun 2018 12:41:32: #2 number of paired peaks: 90 WARNING @ Sun, 03 Jun 2018 12:41:32: Too few paired peaks (90) 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 @ Sun, 03 Jun 2018 12:41:32: Process for pairing-model is terminated! cat: SRX4082356.05_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 `SRX4082356.05_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 `SRX4082356.05_*.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 `SRX4082356.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。