Job ID = 9157366 sra ファイルのダウンロード中... Completed: 747857K bytes transferred in 9 seconds (653924K bits/sec), in 1 file, 2 directories. 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... Written 22648545 spots for /home/okishinya/chipatlas/results/ce10/SRX1132913/SRR2144362.sra Written 22648545 spots total 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: 00:08:45 22648545 reads; of these: 22648545 (100.00%) were unpaired; of these: 846495 (3.74%) aligned 0 times 18496141 (81.67%) aligned exactly 1 time 3305909 (14.60%) aligned >1 times 96.26% overall alignment rate Time searching: 00:08:45 Overall time: 00:08:45 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 12 files... [bam_rmdupse_core] 6679839 / 21802050 = 0.3064 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 @ Tue, 27 Jun 2017 11:43:36: # Command line: callpeak -t SRX1132913.bam -f BAM -g ce -n SRX1132913.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1132913.20 # format = BAM # ChIP-seq file = ['SRX1132913.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 @ Tue, 27 Jun 2017 11:43:36: #1 read tag files... INFO @ Tue, 27 Jun 2017 11:43:36: # Command line: callpeak -t SRX1132913.bam -f BAM -g ce -n SRX1132913.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1132913.10 # format = BAM # ChIP-seq file = ['SRX1132913.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 @ Tue, 27 Jun 2017 11:43:36: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 11:43:36: #1 read tag files... INFO @ Tue, 27 Jun 2017 11:43:36: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 11:43:36: # Command line: callpeak -t SRX1132913.bam -f BAM -g ce -n SRX1132913.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1132913.05 # format = BAM # ChIP-seq file = ['SRX1132913.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 @ Tue, 27 Jun 2017 11:43:36: #1 read tag files... INFO @ Tue, 27 Jun 2017 11:43:36: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 11:43:43: 1000000 INFO @ Tue, 27 Jun 2017 11:43:44: 1000000 INFO @ Tue, 27 Jun 2017 11:43:44: 1000000 INFO @ Tue, 27 Jun 2017 11:43:51: 2000000 INFO @ Tue, 27 Jun 2017 11:43:51: 2000000 INFO @ Tue, 27 Jun 2017 11:43:51: 2000000 INFO @ Tue, 27 Jun 2017 11:43:58: 3000000 INFO @ Tue, 27 Jun 2017 11:43:59: 3000000 INFO @ Tue, 27 Jun 2017 11:43:59: 3000000 INFO @ Tue, 27 Jun 2017 11:44:05: 4000000 INFO @ Tue, 27 Jun 2017 11:44:06: 4000000 INFO @ Tue, 27 Jun 2017 11:44:07: 4000000 INFO @ Tue, 27 Jun 2017 11:44:13: 5000000 INFO @ Tue, 27 Jun 2017 11:44:14: 5000000 INFO @ Tue, 27 Jun 2017 11:44:15: 5000000 INFO @ Tue, 27 Jun 2017 11:44:20: 6000000 INFO @ Tue, 27 Jun 2017 11:44:22: 6000000 INFO @ Tue, 27 Jun 2017 11:44:23: 6000000 INFO @ Tue, 27 Jun 2017 11:44:27: 7000000 INFO @ Tue, 27 Jun 2017 11:44:29: 7000000 INFO @ Tue, 27 Jun 2017 11:44:31: 7000000 INFO @ Tue, 27 Jun 2017 11:44:35: 8000000 INFO @ Tue, 27 Jun 2017 11:44:37: 8000000 INFO @ Tue, 27 Jun 2017 11:44:39: 8000000 INFO @ Tue, 27 Jun 2017 11:44:42: 9000000 INFO @ Tue, 27 Jun 2017 11:44:45: 9000000 INFO @ Tue, 27 Jun 2017 11:44:47: 9000000 INFO @ Tue, 27 Jun 2017 11:44:49: 10000000 INFO @ Tue, 27 Jun 2017 11:44:53: 10000000 INFO @ Tue, 27 Jun 2017 11:44:55: 10000000 INFO @ Tue, 27 Jun 2017 11:44:57: 11000000 INFO @ Tue, 27 Jun 2017 11:45:00: 11000000 INFO @ Tue, 27 Jun 2017 11:45:03: 11000000 INFO @ Tue, 27 Jun 2017 11:45:04: 12000000 INFO @ Tue, 27 Jun 2017 11:45:08: 12000000 INFO @ Tue, 27 Jun 2017 11:45:11: 12000000 INFO @ Tue, 27 Jun 2017 11:45:11: 13000000 INFO @ Tue, 27 Jun 2017 11:45:16: 13000000 INFO @ Tue, 27 Jun 2017 11:45:19: 13000000 INFO @ Tue, 27 Jun 2017 11:45:19: 14000000 INFO @ Tue, 27 Jun 2017 11:45:23: 14000000 INFO @ Tue, 27 Jun 2017 11:45:26: 15000000 INFO @ Tue, 27 Jun 2017 11:45:26: 14000000 INFO @ Tue, 27 Jun 2017 11:45:27: #1 tag size is determined as 50 bps INFO @ Tue, 27 Jun 2017 11:45:27: #1 tag size = 50 INFO @ Tue, 27 Jun 2017 11:45:27: #1 total tags in treatment: 15122211 INFO @ Tue, 27 Jun 2017 11:45:27: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 11:45:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 11:45:27: #1 tags after filtering in treatment: 15122211 INFO @ Tue, 27 Jun 2017 11:45:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 11:45:27: #1 finished! INFO @ Tue, 27 Jun 2017 11:45:27: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 11:45:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 11:45:28: #2 number of paired peaks: 19 WARNING @ Tue, 27 Jun 2017 11:45:28: Too few paired peaks (19) 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 @ Tue, 27 Jun 2017 11:45:28: Process for pairing-model is terminated! cat: SRX1132913.20_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 `SRX1132913.20_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 `SRX1132913.20_*.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 `SRX1132913.20_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 @ Tue, 27 Jun 2017 11:45:31: 15000000 INFO @ Tue, 27 Jun 2017 11:45:32: #1 tag size is determined as 50 bps INFO @ Tue, 27 Jun 2017 11:45:32: #1 tag size = 50 INFO @ Tue, 27 Jun 2017 11:45:32: #1 total tags in treatment: 15122211 INFO @ Tue, 27 Jun 2017 11:45:32: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 11:45:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 11:45:33: #1 tags after filtering in treatment: 15122211 INFO @ Tue, 27 Jun 2017 11:45:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 11:45:33: #1 finished! INFO @ Tue, 27 Jun 2017 11:45:33: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 11:45:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 11:45:34: #2 number of paired peaks: 19 WARNING @ Tue, 27 Jun 2017 11:45:34: Too few paired peaks (19) 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 @ Tue, 27 Jun 2017 11:45:34: Process for pairing-model is terminated! cat: SRX1132913.10_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 `SRX1132913.10_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 `SRX1132913.10_*.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 `SRX1132913.10_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 @ Tue, 27 Jun 2017 11:45:34: 15000000 INFO @ Tue, 27 Jun 2017 11:45:35: #1 tag size is determined as 50 bps INFO @ Tue, 27 Jun 2017 11:45:35: #1 tag size = 50 INFO @ Tue, 27 Jun 2017 11:45:35: #1 total tags in treatment: 15122211 INFO @ Tue, 27 Jun 2017 11:45:35: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 11:45:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 11:45:35: #1 tags after filtering in treatment: 15122211 INFO @ Tue, 27 Jun 2017 11:45:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 11:45:35: #1 finished! INFO @ Tue, 27 Jun 2017 11:45:35: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 11:45:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 11:45:36: #2 number of paired peaks: 19 WARNING @ Tue, 27 Jun 2017 11:45:36: Too few paired peaks (19) 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 @ Tue, 27 Jun 2017 11:45:36: Process for pairing-model is terminated! cat: SRX1132913.05_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 `SRX1132913.05_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 `SRX1132913.05_*.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 `SRX1132913.05_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。