Job ID = 10924590 sra ファイルのダウンロード中... Completed: 1334290K bytes transferred in 52 seconds (208095K 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 33370283 spots for /home/okishinya/chipatlas/results/ce10/SRX4200537/SRR7298003.sra Written 33370283 spots for /home/okishinya/chipatlas/results/ce10/SRX4200537/SRR7298003.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: 00:11:47 33370283 reads; of these: 33370283 (100.00%) were unpaired; of these: 1319577 (3.95%) aligned 0 times 27824314 (83.38%) aligned exactly 1 time 4226392 (12.67%) aligned >1 times 96.05% overall alignment rate Time searching: 00:11:47 Overall time: 00:11:47 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 16 files... [bam_rmdupse_core] 15699469 / 32050706 = 0.4898 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 10:47:54: # Command line: callpeak -t SRX4200537.bam -f BAM -g ce -n SRX4200537.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4200537.05 # format = BAM # ChIP-seq file = ['SRX4200537.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 10:47:54: # Command line: callpeak -t SRX4200537.bam -f BAM -g ce -n SRX4200537.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4200537.20 # format = BAM # ChIP-seq file = ['SRX4200537.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 10:47:54: # Command line: callpeak -t SRX4200537.bam -f BAM -g ce -n SRX4200537.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4200537.10 # format = BAM # ChIP-seq file = ['SRX4200537.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 10:47:54: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:47:54: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:47:54: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:47:54: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:47:54: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:47:54: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:48:01: 1000000 INFO @ Mon, 06 Aug 2018 10:48:01: 1000000 INFO @ Mon, 06 Aug 2018 10:48:01: 1000000 INFO @ Mon, 06 Aug 2018 10:48:08: 2000000 INFO @ Mon, 06 Aug 2018 10:48:09: 2000000 INFO @ Mon, 06 Aug 2018 10:48:09: 2000000 INFO @ Mon, 06 Aug 2018 10:48:16: 3000000 INFO @ Mon, 06 Aug 2018 10:48:16: 3000000 INFO @ Mon, 06 Aug 2018 10:48:16: 3000000 INFO @ Mon, 06 Aug 2018 10:48:23: 4000000 INFO @ Mon, 06 Aug 2018 10:48:24: 4000000 INFO @ Mon, 06 Aug 2018 10:48:24: 4000000 INFO @ Mon, 06 Aug 2018 10:48:31: 5000000 INFO @ Mon, 06 Aug 2018 10:48:31: 5000000 INFO @ Mon, 06 Aug 2018 10:48:31: 5000000 INFO @ Mon, 06 Aug 2018 10:48:38: 6000000 INFO @ Mon, 06 Aug 2018 10:48:39: 6000000 INFO @ Mon, 06 Aug 2018 10:48:39: 6000000 INFO @ Mon, 06 Aug 2018 10:48:45: 7000000 INFO @ Mon, 06 Aug 2018 10:48:46: 7000000 INFO @ Mon, 06 Aug 2018 10:48:46: 7000000 INFO @ Mon, 06 Aug 2018 10:48:53: 8000000 INFO @ Mon, 06 Aug 2018 10:48:54: 8000000 INFO @ Mon, 06 Aug 2018 10:48:54: 8000000 INFO @ Mon, 06 Aug 2018 10:49:00: 9000000 INFO @ Mon, 06 Aug 2018 10:49:01: 9000000 INFO @ Mon, 06 Aug 2018 10:49:01: 9000000 INFO @ Mon, 06 Aug 2018 10:49:07: 10000000 INFO @ Mon, 06 Aug 2018 10:49:09: 10000000 INFO @ Mon, 06 Aug 2018 10:49:09: 10000000 INFO @ Mon, 06 Aug 2018 10:49:15: 11000000 INFO @ Mon, 06 Aug 2018 10:49:16: 11000000 INFO @ Mon, 06 Aug 2018 10:49:16: 11000000 INFO @ Mon, 06 Aug 2018 10:49:22: 12000000 INFO @ Mon, 06 Aug 2018 10:49:24: 12000000 INFO @ Mon, 06 Aug 2018 10:49:24: 12000000 INFO @ Mon, 06 Aug 2018 10:49:30: 13000000 INFO @ Mon, 06 Aug 2018 10:49:31: 13000000 INFO @ Mon, 06 Aug 2018 10:49:31: 13000000 INFO @ Mon, 06 Aug 2018 10:49:37: 14000000 INFO @ Mon, 06 Aug 2018 10:49:39: 14000000 INFO @ Mon, 06 Aug 2018 10:49:39: 14000000 INFO @ Mon, 06 Aug 2018 10:49:44: 15000000 INFO @ Mon, 06 Aug 2018 10:49:47: 15000000 INFO @ Mon, 06 Aug 2018 10:49:47: 15000000 INFO @ Mon, 06 Aug 2018 10:49:52: 16000000 INFO @ Mon, 06 Aug 2018 10:49:54: 16000000 INFO @ Mon, 06 Aug 2018 10:49:54: 16000000 INFO @ Mon, 06 Aug 2018 10:49:54: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:49:54: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:49:54: #1 total tags in treatment: 16351237 INFO @ Mon, 06 Aug 2018 10:49:54: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:49:54: #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 10:49:55: #1 tags after filtering in treatment: 16351237 INFO @ Mon, 06 Aug 2018 10:49:55: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:49:55: #1 finished! INFO @ Mon, 06 Aug 2018 10:49:55: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:49:55: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:49:56: #2 number of paired peaks: 22 WARNING @ Mon, 06 Aug 2018 10:49:56: Too few paired peaks (22) 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 10:49:56: Process for pairing-model is terminated! cat: SRX4200537.10_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 `SRX4200537.10_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 `SRX4200537.10_*.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 `SRX4200537.10_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 10:49:57: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:49:57: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:49:57: #1 total tags in treatment: 16351237 INFO @ Mon, 06 Aug 2018 10:49:57: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:49:57: #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 10:49:57: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:49:57: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:49:57: #1 total tags in treatment: 16351237 INFO @ Mon, 06 Aug 2018 10:49:57: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:49:57: #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 10:49:57: #1 tags after filtering in treatment: 16351237 INFO @ Mon, 06 Aug 2018 10:49:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:49:57: #1 finished! INFO @ Mon, 06 Aug 2018 10:49:57: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:49:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:49:57: #1 tags after filtering in treatment: 16351237 INFO @ Mon, 06 Aug 2018 10:49:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:49:57: #1 finished! INFO @ Mon, 06 Aug 2018 10:49:57: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:49:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:49:58: #2 number of paired peaks: 22 WARNING @ Mon, 06 Aug 2018 10:49:58: Too few paired peaks (22) 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 10:49:58: Process for pairing-model is terminated! cat: SRX4200537.20_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 `SRX4200537.20_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 `SRX4200537.20_*.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 `SRX4200537.20_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 10:49:58: #2 number of paired peaks: 22 WARNING @ Mon, 06 Aug 2018 10:49:58: Too few paired peaks (22) 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 10:49:58: Process for pairing-model is terminated! cat: SRX4200537.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4200537.05_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 `SRX4200537.05_*.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 `SRX4200537.05_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。