Job ID = 10924585 sra ファイルのダウンロード中... Completed: 1515134K bytes transferred in 56 seconds (219341K 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 38575975 spots for /home/okishinya/chipatlas/results/ce10/SRX4200532/SRR7297998.sra Written 38575975 spots for /home/okishinya/chipatlas/results/ce10/SRX4200532/SRR7297998.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: 00:14:29 38575975 reads; of these: 38575975 (100.00%) were unpaired; of these: 96745 (0.25%) aligned 0 times 33596077 (87.09%) aligned exactly 1 time 4883153 (12.66%) aligned >1 times 99.75% overall alignment rate Time searching: 00:14:29 Overall time: 00:14:29 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] 16760057 / 38479230 = 0.4356 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 10:52:51: # Command line: callpeak -t SRX4200532.bam -f BAM -g ce -n SRX4200532.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4200532.05 # format = BAM # ChIP-seq file = ['SRX4200532.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 10:52:51: # Command line: callpeak -t SRX4200532.bam -f BAM -g ce -n SRX4200532.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4200532.10 # format = BAM # ChIP-seq file = ['SRX4200532.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 10:52:51: # Command line: callpeak -t SRX4200532.bam -f BAM -g ce -n SRX4200532.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4200532.20 # format = BAM # ChIP-seq file = ['SRX4200532.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 10:52:51: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:52:51: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:52:51: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:52:51: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:52:51: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:52:51: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:52:59: 1000000 INFO @ Mon, 06 Aug 2018 10:52:59: 1000000 INFO @ Mon, 06 Aug 2018 10:52:59: 1000000 INFO @ Mon, 06 Aug 2018 10:53:06: 2000000 INFO @ Mon, 06 Aug 2018 10:53:07: 2000000 INFO @ Mon, 06 Aug 2018 10:53:07: 2000000 INFO @ Mon, 06 Aug 2018 10:53:14: 3000000 INFO @ Mon, 06 Aug 2018 10:53:15: 3000000 INFO @ Mon, 06 Aug 2018 10:53:15: 3000000 INFO @ Mon, 06 Aug 2018 10:53:22: 4000000 INFO @ Mon, 06 Aug 2018 10:53:23: 4000000 INFO @ Mon, 06 Aug 2018 10:53:23: 4000000 INFO @ Mon, 06 Aug 2018 10:53:29: 5000000 INFO @ Mon, 06 Aug 2018 10:53:31: 5000000 INFO @ Mon, 06 Aug 2018 10:53:31: 5000000 INFO @ Mon, 06 Aug 2018 10:53:37: 6000000 INFO @ Mon, 06 Aug 2018 10:53:39: 6000000 INFO @ Mon, 06 Aug 2018 10:53:39: 6000000 INFO @ Mon, 06 Aug 2018 10:53:45: 7000000 INFO @ Mon, 06 Aug 2018 10:53:48: 7000000 INFO @ Mon, 06 Aug 2018 10:53:48: 7000000 INFO @ Mon, 06 Aug 2018 10:53:53: 8000000 INFO @ Mon, 06 Aug 2018 10:53:56: 8000000 INFO @ Mon, 06 Aug 2018 10:53:56: 8000000 INFO @ Mon, 06 Aug 2018 10:54:00: 9000000 INFO @ Mon, 06 Aug 2018 10:54:04: 9000000 INFO @ Mon, 06 Aug 2018 10:54:04: 9000000 INFO @ Mon, 06 Aug 2018 10:54:08: 10000000 INFO @ Mon, 06 Aug 2018 10:54:12: 10000000 INFO @ Mon, 06 Aug 2018 10:54:12: 10000000 INFO @ Mon, 06 Aug 2018 10:54:16: 11000000 INFO @ Mon, 06 Aug 2018 10:54:21: 11000000 INFO @ Mon, 06 Aug 2018 10:54:21: 11000000 INFO @ Mon, 06 Aug 2018 10:54:23: 12000000 INFO @ Mon, 06 Aug 2018 10:54:29: 12000000 INFO @ Mon, 06 Aug 2018 10:54:29: 12000000 INFO @ Mon, 06 Aug 2018 10:54:31: 13000000 INFO @ Mon, 06 Aug 2018 10:54:37: 13000000 INFO @ Mon, 06 Aug 2018 10:54:37: 13000000 INFO @ Mon, 06 Aug 2018 10:54:39: 14000000 INFO @ Mon, 06 Aug 2018 10:54:45: 14000000 INFO @ Mon, 06 Aug 2018 10:54:45: 14000000 INFO @ Mon, 06 Aug 2018 10:54:46: 15000000 INFO @ Mon, 06 Aug 2018 10:54:53: 15000000 INFO @ Mon, 06 Aug 2018 10:54:53: 15000000 INFO @ Mon, 06 Aug 2018 10:54:54: 16000000 INFO @ Mon, 06 Aug 2018 10:55:02: 17000000 INFO @ Mon, 06 Aug 2018 10:55:02: 16000000 INFO @ Mon, 06 Aug 2018 10:55:02: 16000000 INFO @ Mon, 06 Aug 2018 10:55:09: 18000000 INFO @ Mon, 06 Aug 2018 10:55:10: 17000000 INFO @ Mon, 06 Aug 2018 10:55:10: 17000000 INFO @ Mon, 06 Aug 2018 10:55:17: 19000000 INFO @ Mon, 06 Aug 2018 10:55:18: 18000000 INFO @ Mon, 06 Aug 2018 10:55:18: 18000000 INFO @ Mon, 06 Aug 2018 10:55:25: 20000000 INFO @ Mon, 06 Aug 2018 10:55:27: 19000000 INFO @ Mon, 06 Aug 2018 10:55:27: 19000000 INFO @ Mon, 06 Aug 2018 10:55:33: 21000000 INFO @ Mon, 06 Aug 2018 10:55:35: 20000000 INFO @ Mon, 06 Aug 2018 10:55:35: 20000000 INFO @ Mon, 06 Aug 2018 10:55:38: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:55:38: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:55:38: #1 total tags in treatment: 21719173 INFO @ Mon, 06 Aug 2018 10:55:38: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:55:38: #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 10:55:39: #1 tags after filtering in treatment: 21719173 INFO @ Mon, 06 Aug 2018 10:55:39: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:55:39: #1 finished! INFO @ Mon, 06 Aug 2018 10:55:39: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:55:39: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:55:40: #2 number of paired peaks: 7 WARNING @ Mon, 06 Aug 2018 10:55:40: Too few paired peaks (7) 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 10:55:40: Process for pairing-model is terminated! cat: SRX4200532.05_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 `SRX4200532.05_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 `SRX4200532.05_*.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 `SRX4200532.05_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 @ Mon, 06 Aug 2018 10:55:43: 21000000 INFO @ Mon, 06 Aug 2018 10:55:43: 21000000 INFO @ Mon, 06 Aug 2018 10:55:49: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:55:49: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:55:49: #1 total tags in treatment: 21719173 INFO @ Mon, 06 Aug 2018 10:55:49: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:55:49: #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 10:55:49: #1 tag size is determined as 75 bps INFO @ Mon, 06 Aug 2018 10:55:49: #1 tag size = 75 INFO @ Mon, 06 Aug 2018 10:55:49: #1 total tags in treatment: 21719173 INFO @ Mon, 06 Aug 2018 10:55:49: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:55:49: #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 10:55:50: #1 tags after filtering in treatment: 21719173 INFO @ Mon, 06 Aug 2018 10:55:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:55:50: #1 finished! INFO @ Mon, 06 Aug 2018 10:55:50: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:55:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:55:50: #1 tags after filtering in treatment: 21719173 INFO @ Mon, 06 Aug 2018 10:55:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:55:50: #1 finished! INFO @ Mon, 06 Aug 2018 10:55:50: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:55:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:55:51: #2 number of paired peaks: 7 WARNING @ Mon, 06 Aug 2018 10:55:51: Too few paired peaks (7) 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 10:55:51: Process for pairing-model is terminated! cat: SRX4200532.20_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 `SRX4200532.20_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 `SRX4200532.20_*.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 `SRX4200532.20_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 10:55:52: #2 number of paired peaks: 7 WARNING @ Mon, 06 Aug 2018 10:55:52: Too few paired peaks (7) 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 10:55:52: Process for pairing-model is terminated! cat: SRX4200532.10_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 `SRX4200532.10_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 `SRX4200532.10_*.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 `SRX4200532.10_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。