Job ID = 11634643 sra ファイルのダウンロード中... Completed: 2398249K bytes transferred in 26 seconds (740609K 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 78303370 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3933760/SRR7000942.sra Written 78303370 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3933760/SRR7000942.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: 00:19:54 78303370 reads; of these: 78303370 (100.00%) were unpaired; of these: 4963309 (6.34%) aligned 0 times 66493666 (84.92%) aligned exactly 1 time 6846395 (8.74%) aligned >1 times 93.66% overall alignment rate Time searching: 00:19:54 Overall time: 00:19:54 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 32 files... [bam_rmdupse_core] 61870852 / 73340061 = 0.8436 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, 15 Feb 2019 10:58:20: # Command line: callpeak -t SRX3933760.bam -f BAM -g 12100000 -n SRX3933760.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3933760.05 # format = BAM # ChIP-seq file = ['SRX3933760.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, 15 Feb 2019 10:58:20: # Command line: callpeak -t SRX3933760.bam -f BAM -g 12100000 -n SRX3933760.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3933760.10 # format = BAM # ChIP-seq file = ['SRX3933760.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, 15 Feb 2019 10:58:20: # Command line: callpeak -t SRX3933760.bam -f BAM -g 12100000 -n SRX3933760.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3933760.20 # format = BAM # ChIP-seq file = ['SRX3933760.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, 15 Feb 2019 10:58:20: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:58:20: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:58:20: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:58:20: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:58:20: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:58:20: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:58:28: 1000000 INFO @ Fri, 15 Feb 2019 10:58:28: 1000000 INFO @ Fri, 15 Feb 2019 10:58:28: 1000000 INFO @ Fri, 15 Feb 2019 10:58:35: 2000000 INFO @ Fri, 15 Feb 2019 10:58:36: 2000000 INFO @ Fri, 15 Feb 2019 10:58:36: 2000000 INFO @ Fri, 15 Feb 2019 10:58:42: 3000000 INFO @ Fri, 15 Feb 2019 10:58:44: 3000000 INFO @ Fri, 15 Feb 2019 10:58:44: 3000000 INFO @ Fri, 15 Feb 2019 10:58:50: 4000000 INFO @ Fri, 15 Feb 2019 10:58:52: 4000000 INFO @ Fri, 15 Feb 2019 10:58:52: 4000000 INFO @ Fri, 15 Feb 2019 10:58:57: 5000000 INFO @ Fri, 15 Feb 2019 10:59:00: 5000000 INFO @ Fri, 15 Feb 2019 10:59:00: 5000000 INFO @ Fri, 15 Feb 2019 10:59:04: 6000000 INFO @ Fri, 15 Feb 2019 10:59:08: 6000000 INFO @ Fri, 15 Feb 2019 10:59:08: 6000000 INFO @ Fri, 15 Feb 2019 10:59:11: 7000000 INFO @ Fri, 15 Feb 2019 10:59:16: 7000000 INFO @ Fri, 15 Feb 2019 10:59:16: 7000000 INFO @ Fri, 15 Feb 2019 10:59:19: 8000000 INFO @ Fri, 15 Feb 2019 10:59:23: 8000000 INFO @ Fri, 15 Feb 2019 10:59:23: 8000000 INFO @ Fri, 15 Feb 2019 10:59:26: 9000000 INFO @ Fri, 15 Feb 2019 10:59:31: 9000000 INFO @ Fri, 15 Feb 2019 10:59:31: 9000000 INFO @ Fri, 15 Feb 2019 10:59:33: 10000000 INFO @ Fri, 15 Feb 2019 10:59:39: 10000000 INFO @ Fri, 15 Feb 2019 10:59:39: 10000000 INFO @ Fri, 15 Feb 2019 10:59:41: 11000000 INFO @ Fri, 15 Feb 2019 10:59:44: #1 tag size is determined as 80 bps INFO @ Fri, 15 Feb 2019 10:59:44: #1 tag size = 80 INFO @ Fri, 15 Feb 2019 10:59:44: #1 total tags in treatment: 11469209 INFO @ Fri, 15 Feb 2019 10:59:44: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:59:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 10:59:44: #1 tags after filtering in treatment: 11469209 INFO @ Fri, 15 Feb 2019 10:59:44: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:59:44: #1 finished! INFO @ Fri, 15 Feb 2019 10:59:44: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:59:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:59:45: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:59:45: 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, 15 Feb 2019 10:59:45: Process for pairing-model is terminated! cat: SRX3933760.05_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): 15 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3933760.05_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 `SRX3933760.05_*.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 `SRX3933760.05_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, 15 Feb 2019 10:59:47: 11000000 INFO @ Fri, 15 Feb 2019 10:59:47: 11000000 INFO @ Fri, 15 Feb 2019 10:59:51: #1 tag size is determined as 80 bps INFO @ Fri, 15 Feb 2019 10:59:51: #1 tag size = 80 INFO @ Fri, 15 Feb 2019 10:59:51: #1 total tags in treatment: 11469209 INFO @ Fri, 15 Feb 2019 10:59:51: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:59:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 10:59:51: #1 tag size is determined as 80 bps INFO @ Fri, 15 Feb 2019 10:59:51: #1 tag size = 80 INFO @ Fri, 15 Feb 2019 10:59:51: #1 total tags in treatment: 11469209 INFO @ Fri, 15 Feb 2019 10:59:51: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:59:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 10:59:51: #1 tags after filtering in treatment: 11469209 INFO @ Fri, 15 Feb 2019 10:59:51: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:59:51: #1 finished! INFO @ Fri, 15 Feb 2019 10:59:51: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:59:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:59:51: #1 tags after filtering in treatment: 11469209 INFO @ Fri, 15 Feb 2019 10:59:51: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:59:51: #1 finished! INFO @ Fri, 15 Feb 2019 10:59:51: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:59:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:59:51: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:59:51: 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, 15 Feb 2019 10:59:51: Process for pairing-model is terminated! cat: SRX3933760.10_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): 6 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3933760.10_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 `SRX3933760.10_*.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 `SRX3933760.10_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, 15 Feb 2019 10:59:52: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:59:52: 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, 15 Feb 2019 10:59:52: Process for pairing-model is terminated! cat: SRX3933760.20_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3933760.20_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 `SRX3933760.20_*.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 `SRX3933760.20_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。