Job ID = 10924598 sra ファイルのダウンロード中... Completed: 383225K bytes transferred in 20 seconds (150887K 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 20504282 spots for /home/okishinya/chipatlas/results/ce10/SRX4200545/SRR7298011.sra Written 20504282 spots for /home/okishinya/chipatlas/results/ce10/SRX4200545/SRR7298011.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: 00:05:11 20504282 reads; of these: 20504282 (100.00%) were unpaired; of these: 1855996 (9.05%) aligned 0 times 15506223 (75.62%) aligned exactly 1 time 3142063 (15.32%) aligned >1 times 90.95% overall alignment rate Time searching: 00:05:11 Overall time: 00:05:11 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] 5560723 / 18648286 = 0.2982 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 10:35:44: # Command line: callpeak -t SRX4200545.bam -f BAM -g ce -n SRX4200545.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4200545.05 # format = BAM # ChIP-seq file = ['SRX4200545.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 10:35:44: # Command line: callpeak -t SRX4200545.bam -f BAM -g ce -n SRX4200545.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4200545.20 # format = BAM # ChIP-seq file = ['SRX4200545.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 10:35:44: # Command line: callpeak -t SRX4200545.bam -f BAM -g ce -n SRX4200545.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4200545.10 # format = BAM # ChIP-seq file = ['SRX4200545.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 10:35:44: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:35:44: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:35:44: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:35:44: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:35:44: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:35:44: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:35:50: 1000000 INFO @ Mon, 06 Aug 2018 10:35:50: 1000000 INFO @ Mon, 06 Aug 2018 10:35:50: 1000000 INFO @ Mon, 06 Aug 2018 10:35:56: 2000000 INFO @ Mon, 06 Aug 2018 10:35:56: 2000000 INFO @ Mon, 06 Aug 2018 10:35:56: 2000000 INFO @ Mon, 06 Aug 2018 10:36:01: 3000000 INFO @ Mon, 06 Aug 2018 10:36:02: 3000000 INFO @ Mon, 06 Aug 2018 10:36:02: 3000000 INFO @ Mon, 06 Aug 2018 10:36:07: 4000000 INFO @ Mon, 06 Aug 2018 10:36:07: 4000000 INFO @ Mon, 06 Aug 2018 10:36:08: 4000000 INFO @ Mon, 06 Aug 2018 10:36:13: 5000000 INFO @ Mon, 06 Aug 2018 10:36:13: 5000000 INFO @ Mon, 06 Aug 2018 10:36:14: 5000000 INFO @ Mon, 06 Aug 2018 10:36:18: 6000000 INFO @ Mon, 06 Aug 2018 10:36:19: 6000000 INFO @ Mon, 06 Aug 2018 10:36:20: 6000000 INFO @ Mon, 06 Aug 2018 10:36:24: 7000000 INFO @ Mon, 06 Aug 2018 10:36:25: 7000000 INFO @ Mon, 06 Aug 2018 10:36:26: 7000000 INFO @ Mon, 06 Aug 2018 10:36:30: 8000000 INFO @ Mon, 06 Aug 2018 10:36:31: 8000000 INFO @ Mon, 06 Aug 2018 10:36:32: 8000000 INFO @ Mon, 06 Aug 2018 10:36:35: 9000000 INFO @ Mon, 06 Aug 2018 10:36:37: 9000000 INFO @ Mon, 06 Aug 2018 10:36:38: 9000000 INFO @ Mon, 06 Aug 2018 10:36:41: 10000000 INFO @ Mon, 06 Aug 2018 10:36:43: 10000000 INFO @ Mon, 06 Aug 2018 10:36:44: 10000000 INFO @ Mon, 06 Aug 2018 10:36:47: 11000000 INFO @ Mon, 06 Aug 2018 10:36:49: 11000000 INFO @ Mon, 06 Aug 2018 10:36:50: 11000000 INFO @ Mon, 06 Aug 2018 10:36:52: 12000000 INFO @ Mon, 06 Aug 2018 10:36:54: 12000000 INFO @ Mon, 06 Aug 2018 10:36:56: 12000000 INFO @ Mon, 06 Aug 2018 10:36:58: 13000000 INFO @ Mon, 06 Aug 2018 10:36:58: #1 tag size is determined as 51 bps INFO @ Mon, 06 Aug 2018 10:36:58: #1 tag size = 51 INFO @ Mon, 06 Aug 2018 10:36:58: #1 total tags in treatment: 13087563 INFO @ Mon, 06 Aug 2018 10:36:58: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:36:58: #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 10:36:59: #1 tags after filtering in treatment: 13087563 INFO @ Mon, 06 Aug 2018 10:36:59: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:36:59: #1 finished! INFO @ Mon, 06 Aug 2018 10:36:59: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:36:59: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:37:00: #2 number of paired peaks: 66 WARNING @ Mon, 06 Aug 2018 10:37:00: Too few paired peaks (66) 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 10:37:00: Process for pairing-model is terminated! cat: SRX4200545.20_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 `SRX4200545.20_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 `SRX4200545.20_*.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 `SRX4200545.20_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 10:37:00: 13000000 INFO @ Mon, 06 Aug 2018 10:37:01: #1 tag size is determined as 51 bps INFO @ Mon, 06 Aug 2018 10:37:01: #1 tag size = 51 INFO @ Mon, 06 Aug 2018 10:37:01: #1 total tags in treatment: 13087563 INFO @ Mon, 06 Aug 2018 10:37:01: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:37:01: #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 10:37:01: #1 tags after filtering in treatment: 13087563 INFO @ Mon, 06 Aug 2018 10:37:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:37:01: #1 finished! INFO @ Mon, 06 Aug 2018 10:37:01: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:37:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:37:02: 13000000 INFO @ Mon, 06 Aug 2018 10:37:02: #2 number of paired peaks: 66 WARNING @ Mon, 06 Aug 2018 10:37:02: Too few paired peaks (66) 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 10:37:02: Process for pairing-model is terminated! cat: SRX4200545.05_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 `SRX4200545.05_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 `SRX4200545.05_*.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 `SRX4200545.05_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 10:37:02: #1 tag size is determined as 51 bps INFO @ Mon, 06 Aug 2018 10:37:02: #1 tag size = 51 INFO @ Mon, 06 Aug 2018 10:37:02: #1 total tags in treatment: 13087563 INFO @ Mon, 06 Aug 2018 10:37:02: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:37:02: #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 10:37:02: #1 tags after filtering in treatment: 13087563 INFO @ Mon, 06 Aug 2018 10:37:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:37:02: #1 finished! INFO @ Mon, 06 Aug 2018 10:37:02: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:37:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:37:03: #2 number of paired peaks: 66 WARNING @ Mon, 06 Aug 2018 10:37:03: Too few paired peaks (66) 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 10:37:03: Process for pairing-model is terminated! cat: SRX4200545.10_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 `SRX4200545.10_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 `SRX4200545.10_*.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 `SRX4200545.10_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。