Job ID = 10924588 sra ファイルのダウンロード中... Completed: 418001K bytes transferred in 18 seconds (188819K 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 13436699 spots for /home/okishinya/chipatlas/results/ce10/SRX4200535/SRR7298001.sra Written 13436699 spots for /home/okishinya/chipatlas/results/ce10/SRX4200535/SRR7298001.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: 00:03:09 13436699 reads; of these: 13436699 (100.00%) were unpaired; of these: 1276002 (9.50%) aligned 0 times 10611001 (78.97%) aligned exactly 1 time 1549696 (11.53%) aligned >1 times 90.50% overall alignment rate Time searching: 00:03:10 Overall time: 00:03:10 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] 3330839 / 12160697 = 0.2739 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 @ Mon, 06 Aug 2018 10:32:05: # Command line: callpeak -t SRX4200535.bam -f BAM -g ce -n SRX4200535.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4200535.10 # format = BAM # ChIP-seq file = ['SRX4200535.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 @ Mon, 06 Aug 2018 10:32:05: # Command line: callpeak -t SRX4200535.bam -f BAM -g ce -n SRX4200535.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4200535.20 # format = BAM # ChIP-seq file = ['SRX4200535.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 @ Mon, 06 Aug 2018 10:32:05: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:32:05: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:32:05: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:32:05: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:32:05: # Command line: callpeak -t SRX4200535.bam -f BAM -g ce -n SRX4200535.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4200535.05 # format = BAM # ChIP-seq file = ['SRX4200535.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 @ Mon, 06 Aug 2018 10:32:05: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:32:05: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:32:13: 1000000 INFO @ Mon, 06 Aug 2018 10:32:13: 1000000 INFO @ Mon, 06 Aug 2018 10:32:13: 1000000 INFO @ Mon, 06 Aug 2018 10:32:20: 2000000 INFO @ Mon, 06 Aug 2018 10:32:21: 2000000 INFO @ Mon, 06 Aug 2018 10:32:21: 2000000 INFO @ Mon, 06 Aug 2018 10:32:27: 3000000 INFO @ Mon, 06 Aug 2018 10:32:29: 3000000 INFO @ Mon, 06 Aug 2018 10:32:29: 3000000 INFO @ Mon, 06 Aug 2018 10:32:34: 4000000 INFO @ Mon, 06 Aug 2018 10:32:37: 4000000 INFO @ Mon, 06 Aug 2018 10:32:37: 4000000 INFO @ Mon, 06 Aug 2018 10:32:41: 5000000 INFO @ Mon, 06 Aug 2018 10:32:44: 5000000 INFO @ Mon, 06 Aug 2018 10:32:44: 5000000 INFO @ Mon, 06 Aug 2018 10:32:49: 6000000 INFO @ Mon, 06 Aug 2018 10:32:52: 6000000 INFO @ Mon, 06 Aug 2018 10:32:52: 6000000 INFO @ Mon, 06 Aug 2018 10:32:56: 7000000 INFO @ Mon, 06 Aug 2018 10:33:00: 7000000 INFO @ Mon, 06 Aug 2018 10:33:00: 7000000 INFO @ Mon, 06 Aug 2018 10:33:03: 8000000 INFO @ Mon, 06 Aug 2018 10:33:08: 8000000 INFO @ Mon, 06 Aug 2018 10:33:08: 8000000 INFO @ Mon, 06 Aug 2018 10:33:09: #1 tag size is determined as 50 bps INFO @ Mon, 06 Aug 2018 10:33:09: #1 tag size = 50 INFO @ Mon, 06 Aug 2018 10:33:09: #1 total tags in treatment: 8829858 INFO @ Mon, 06 Aug 2018 10:33:09: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:33:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Aug 2018 10:33:09: #1 tags after filtering in treatment: 8829858 INFO @ Mon, 06 Aug 2018 10:33:09: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:33:09: #1 finished! INFO @ Mon, 06 Aug 2018 10:33:09: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:33:09: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:33:10: #2 number of paired peaks: 48 WARNING @ Mon, 06 Aug 2018 10:33:10: Too few paired peaks (48) 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 @ Mon, 06 Aug 2018 10:33:10: Process for pairing-model is terminated! cat: SRX4200535.20_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 `SRX4200535.20_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 `SRX4200535.20_*.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 `SRX4200535.20_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 @ Mon, 06 Aug 2018 10:33:15: #1 tag size is determined as 50 bps INFO @ Mon, 06 Aug 2018 10:33:15: #1 tag size = 50 INFO @ Mon, 06 Aug 2018 10:33:15: #1 total tags in treatment: 8829858 INFO @ Mon, 06 Aug 2018 10:33:15: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:33:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Aug 2018 10:33:15: #1 tag size is determined as 50 bps INFO @ Mon, 06 Aug 2018 10:33:15: #1 tag size = 50 INFO @ Mon, 06 Aug 2018 10:33:15: #1 total tags in treatment: 8829858 INFO @ Mon, 06 Aug 2018 10:33:15: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:33:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Aug 2018 10:33:15: #1 tags after filtering in treatment: 8829858 INFO @ Mon, 06 Aug 2018 10:33:15: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:33:15: #1 finished! INFO @ Mon, 06 Aug 2018 10:33:15: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:33:15: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:33:15: #1 tags after filtering in treatment: 8829858 INFO @ Mon, 06 Aug 2018 10:33:15: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:33:15: #1 finished! INFO @ Mon, 06 Aug 2018 10:33:15: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:33:15: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:33:15: #2 number of paired peaks: 48 WARNING @ Mon, 06 Aug 2018 10:33:15: Too few paired peaks (48) 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 @ Mon, 06 Aug 2018 10:33:15: Process for pairing-model is terminated! INFO @ Mon, 06 Aug 2018 10:33:15: #2 number of paired peaks: 48 WARNING @ Mon, 06 Aug 2018 10:33:15: Too few paired peaks (48) 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 @ Mon, 06 Aug 2018 10:33:15: Process for pairing-model is terminated! cat: SRX4200535.05_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) cat: SRX4200535.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません rm: cannot remove `SRX4200535.05_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 `SRX4200535.05_*.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 `SRX4200535.05_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4200535.10_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 `SRX4200535.10_*.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 `SRX4200535.10_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。