Job ID = 10924580 sra ファイルのダウンロード中... Completed: 1639189K bytes transferred in 57 seconds (232568K 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 41636318 spots for /home/okishinya/chipatlas/results/ce10/SRX4200528/SRR7297994.sra Written 41636318 spots for /home/okishinya/chipatlas/results/ce10/SRX4200528/SRR7297994.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: 00:16:39 41636318 reads; of these: 41636318 (100.00%) were unpaired; of these: 164326 (0.39%) aligned 0 times 32636634 (78.39%) aligned exactly 1 time 8835358 (21.22%) aligned >1 times 99.61% overall alignment rate Time searching: 00:16:39 Overall time: 00:16:39 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 20 files... [bam_rmdupse_core] 17942653 / 41471992 = 0.4326 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 10:55:48: # Command line: callpeak -t SRX4200528.bam -f BAM -g ce -n SRX4200528.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4200528.05 # format = BAM # ChIP-seq file = ['SRX4200528.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 10:55:48: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:55:48: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:55:48: # Command line: callpeak -t SRX4200528.bam -f BAM -g ce -n SRX4200528.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4200528.20 # format = BAM # ChIP-seq file = ['SRX4200528.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 10:55:48: # Command line: callpeak -t SRX4200528.bam -f BAM -g ce -n SRX4200528.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4200528.10 # format = BAM # ChIP-seq file = ['SRX4200528.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 10:55:48: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:55:48: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:55:48: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:55:48: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:55:55: 1000000 INFO @ Mon, 06 Aug 2018 10:55:55: 1000000 INFO @ Mon, 06 Aug 2018 10:55:55: 1000000 INFO @ Mon, 06 Aug 2018 10:56:02: 2000000 INFO @ Mon, 06 Aug 2018 10:56:02: 2000000 INFO @ Mon, 06 Aug 2018 10:56:02: 2000000 INFO @ Mon, 06 Aug 2018 10:56:09: 3000000 INFO @ Mon, 06 Aug 2018 10:56:09: 3000000 INFO @ Mon, 06 Aug 2018 10:56:09: 3000000 INFO @ Mon, 06 Aug 2018 10:56:15: 4000000 INFO @ Mon, 06 Aug 2018 10:56:16: 4000000 INFO @ Mon, 06 Aug 2018 10:56:16: 4000000 INFO @ Mon, 06 Aug 2018 10:56:22: 5000000 INFO @ Mon, 06 Aug 2018 10:56:23: 5000000 INFO @ Mon, 06 Aug 2018 10:56:23: 5000000 INFO @ Mon, 06 Aug 2018 10:56:28: 6000000 INFO @ Mon, 06 Aug 2018 10:56:30: 6000000 INFO @ Mon, 06 Aug 2018 10:56:30: 6000000 INFO @ Mon, 06 Aug 2018 10:56:35: 7000000 INFO @ Mon, 06 Aug 2018 10:56:37: 7000000 INFO @ Mon, 06 Aug 2018 10:56:37: 7000000 INFO @ Mon, 06 Aug 2018 10:56:42: 8000000 INFO @ Mon, 06 Aug 2018 10:56:44: 8000000 INFO @ Mon, 06 Aug 2018 10:56:44: 8000000 INFO @ Mon, 06 Aug 2018 10:56:49: 9000000 INFO @ Mon, 06 Aug 2018 10:56:51: 9000000 INFO @ Mon, 06 Aug 2018 10:56:51: 9000000 INFO @ Mon, 06 Aug 2018 10:56:55: 10000000 INFO @ Mon, 06 Aug 2018 10:56:57: 10000000 INFO @ Mon, 06 Aug 2018 10:56:57: 10000000 INFO @ Mon, 06 Aug 2018 10:57:02: 11000000 INFO @ Mon, 06 Aug 2018 10:57:05: 11000000 INFO @ Mon, 06 Aug 2018 10:57:05: 11000000 INFO @ Mon, 06 Aug 2018 10:57:09: 12000000 INFO @ Mon, 06 Aug 2018 10:57:12: 12000000 INFO @ Mon, 06 Aug 2018 10:57:12: 12000000 INFO @ Mon, 06 Aug 2018 10:57:16: 13000000 INFO @ Mon, 06 Aug 2018 10:57:19: 13000000 INFO @ Mon, 06 Aug 2018 10:57:19: 13000000 INFO @ Mon, 06 Aug 2018 10:57:24: 14000000 INFO @ Mon, 06 Aug 2018 10:57:26: 14000000 INFO @ Mon, 06 Aug 2018 10:57:27: 14000000 INFO @ Mon, 06 Aug 2018 10:57:31: 15000000 INFO @ Mon, 06 Aug 2018 10:57:33: 15000000 INFO @ Mon, 06 Aug 2018 10:57:34: 15000000 INFO @ Mon, 06 Aug 2018 10:57:38: 16000000 INFO @ Mon, 06 Aug 2018 10:57:40: 16000000 INFO @ Mon, 06 Aug 2018 10:57:41: 16000000 INFO @ Mon, 06 Aug 2018 10:57:45: 17000000 INFO @ Mon, 06 Aug 2018 10:57:47: 17000000 INFO @ Mon, 06 Aug 2018 10:57:49: 17000000 INFO @ Mon, 06 Aug 2018 10:57:52: 18000000 INFO @ Mon, 06 Aug 2018 10:57:54: 18000000 INFO @ Mon, 06 Aug 2018 10:57:56: 18000000 INFO @ Mon, 06 Aug 2018 10:57:59: 19000000 INFO @ Mon, 06 Aug 2018 10:58:01: 19000000 INFO @ Mon, 06 Aug 2018 10:58:03: 19000000 INFO @ Mon, 06 Aug 2018 10:58:06: 20000000 INFO @ Mon, 06 Aug 2018 10:58:08: 20000000 INFO @ Mon, 06 Aug 2018 10:58:10: 20000000 INFO @ Mon, 06 Aug 2018 10:58:12: 21000000 INFO @ Mon, 06 Aug 2018 10:58:15: 21000000 INFO @ Mon, 06 Aug 2018 10:58:17: 21000000 INFO @ Mon, 06 Aug 2018 10:58:19: 22000000 INFO @ Mon, 06 Aug 2018 10:58:22: 22000000 INFO @ Mon, 06 Aug 2018 10:58:24: 22000000 INFO @ Mon, 06 Aug 2018 10:58:26: 23000000 INFO @ Mon, 06 Aug 2018 10:58:29: 23000000 INFO @ Mon, 06 Aug 2018 10:58:29: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:58:29: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:58:29: #1 total tags in treatment: 23529339 INFO @ Mon, 06 Aug 2018 10:58:29: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:58:29: #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 10:58:30: #1 tags after filtering in treatment: 23529339 INFO @ Mon, 06 Aug 2018 10:58:30: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:58:30: #1 finished! INFO @ Mon, 06 Aug 2018 10:58:30: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:58:30: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:58:31: 23000000 INFO @ Mon, 06 Aug 2018 10:58:31: #2 number of paired peaks: 26 WARNING @ Mon, 06 Aug 2018 10:58:31: Too few paired peaks (26) 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 10:58:31: Process for pairing-model is terminated! cat: SRX4200528.10_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 `SRX4200528.10_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 `SRX4200528.10_*.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 `SRX4200528.10_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 @ Mon, 06 Aug 2018 10:58:33: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:58:33: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:58:33: #1 total tags in treatment: 23529339 INFO @ Mon, 06 Aug 2018 10:58:33: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:58:33: #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 10:58:33: #1 tags after filtering in treatment: 23529339 INFO @ Mon, 06 Aug 2018 10:58:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:58:33: #1 finished! INFO @ Mon, 06 Aug 2018 10:58:33: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:58:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:58:34: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:58:34: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:58:34: #1 total tags in treatment: 23529339 INFO @ Mon, 06 Aug 2018 10:58:34: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:58:34: #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 10:58:35: #2 number of paired peaks: 26 WARNING @ Mon, 06 Aug 2018 10:58:35: Too few paired peaks (26) 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 10:58:35: Process for pairing-model is terminated! cat: SRX4200528.20_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 `SRX4200528.20_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 `SRX4200528.20_*.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 `SRX4200528.20_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 10:58:35: #1 tags after filtering in treatment: 23529339 INFO @ Mon, 06 Aug 2018 10:58:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:58:35: #1 finished! INFO @ Mon, 06 Aug 2018 10:58:35: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:58:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:58:37: #2 number of paired peaks: 26 WARNING @ Mon, 06 Aug 2018 10:58:37: Too few paired peaks (26) 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 10:58:37: Process for pairing-model is terminated! cat: SRX4200528.05_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 `SRX4200528.05_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 `SRX4200528.05_*.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 `SRX4200528.05_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。