Job ID = 11296824 sra ファイルのダウンロード中... Completed: 532855K bytes transferred in 27 seconds (157695K 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 28786162 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2969203/SRR5770190.sra Written 28786162 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2969203/SRR5770190.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: 00:05:32 28786162 reads; of these: 28786162 (100.00%) were unpaired; of these: 292421 (1.02%) aligned 0 times 25244085 (87.70%) aligned exactly 1 time 3249656 (11.29%) aligned >1 times 98.98% overall alignment rate Time searching: 00:05:32 Overall time: 00:05:32 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 13789293 / 28493741 = 0.4839 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, 05 Nov 2018 18:05:24: # Command line: callpeak -t SRX2969203.bam -f BAM -g 12100000 -n SRX2969203.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2969203.20 # format = BAM # ChIP-seq file = ['SRX2969203.bam'] # control file = None # effective genome size = 1.21e+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, 05 Nov 2018 18:05:24: # Command line: callpeak -t SRX2969203.bam -f BAM -g 12100000 -n SRX2969203.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2969203.05 # format = BAM # ChIP-seq file = ['SRX2969203.bam'] # control file = None # effective genome size = 1.21e+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, 05 Nov 2018 18:05:24: #1 read tag files... INFO @ Mon, 05 Nov 2018 18:05:24: #1 read tag files... INFO @ Mon, 05 Nov 2018 18:05:24: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 18:05:24: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 18:05:24: # Command line: callpeak -t SRX2969203.bam -f BAM -g 12100000 -n SRX2969203.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2969203.10 # format = BAM # ChIP-seq file = ['SRX2969203.bam'] # control file = None # effective genome size = 1.21e+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, 05 Nov 2018 18:05:24: #1 read tag files... INFO @ Mon, 05 Nov 2018 18:05:24: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 18:05:31: 1000000 INFO @ Mon, 05 Nov 2018 18:05:32: 1000000 INFO @ Mon, 05 Nov 2018 18:05:32: 1000000 INFO @ Mon, 05 Nov 2018 18:05:37: 2000000 INFO @ Mon, 05 Nov 2018 18:05:39: 2000000 INFO @ Mon, 05 Nov 2018 18:05:39: 2000000 INFO @ Mon, 05 Nov 2018 18:05:44: 3000000 INFO @ Mon, 05 Nov 2018 18:05:47: 3000000 INFO @ Mon, 05 Nov 2018 18:05:47: 3000000 INFO @ Mon, 05 Nov 2018 18:05:51: 4000000 INFO @ Mon, 05 Nov 2018 18:05:55: 4000000 INFO @ Mon, 05 Nov 2018 18:05:55: 4000000 INFO @ Mon, 05 Nov 2018 18:05:57: 5000000 INFO @ Mon, 05 Nov 2018 18:06:03: 5000000 INFO @ Mon, 05 Nov 2018 18:06:03: 5000000 INFO @ Mon, 05 Nov 2018 18:06:04: 6000000 INFO @ Mon, 05 Nov 2018 18:06:10: 6000000 INFO @ Mon, 05 Nov 2018 18:06:10: 6000000 INFO @ Mon, 05 Nov 2018 18:06:11: 7000000 INFO @ Mon, 05 Nov 2018 18:06:19: 8000000 INFO @ Mon, 05 Nov 2018 18:06:19: 7000000 INFO @ Mon, 05 Nov 2018 18:06:19: 7000000 INFO @ Mon, 05 Nov 2018 18:06:26: 9000000 INFO @ Mon, 05 Nov 2018 18:06:27: 8000000 INFO @ Mon, 05 Nov 2018 18:06:27: 8000000 INFO @ Mon, 05 Nov 2018 18:06:34: 10000000 INFO @ Mon, 05 Nov 2018 18:06:36: 9000000 INFO @ Mon, 05 Nov 2018 18:06:36: 9000000 INFO @ Mon, 05 Nov 2018 18:06:42: 11000000 INFO @ Mon, 05 Nov 2018 18:06:45: 10000000 INFO @ Mon, 05 Nov 2018 18:06:45: 10000000 INFO @ Mon, 05 Nov 2018 18:06:51: 12000000 INFO @ Mon, 05 Nov 2018 18:06:53: 11000000 INFO @ Mon, 05 Nov 2018 18:06:53: 11000000 INFO @ Mon, 05 Nov 2018 18:06:59: 13000000 INFO @ Mon, 05 Nov 2018 18:07:02: 12000000 INFO @ Mon, 05 Nov 2018 18:07:02: 12000000 INFO @ Mon, 05 Nov 2018 18:07:07: 14000000 INFO @ Mon, 05 Nov 2018 18:07:10: 13000000 INFO @ Mon, 05 Nov 2018 18:07:10: 13000000 INFO @ Mon, 05 Nov 2018 18:07:12: #1 tag size is determined as 49 bps INFO @ Mon, 05 Nov 2018 18:07:12: #1 tag size = 49 INFO @ Mon, 05 Nov 2018 18:07:12: #1 total tags in treatment: 14704448 INFO @ Mon, 05 Nov 2018 18:07:12: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 18:07:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 05 Nov 2018 18:07:13: #1 tags after filtering in treatment: 14704448 INFO @ Mon, 05 Nov 2018 18:07:13: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 18:07:13: #1 finished! INFO @ Mon, 05 Nov 2018 18:07:13: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 18:07:13: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 18:07:14: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 18:07:14: Too few paired peaks (0) 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, 05 Nov 2018 18:07:14: Process for pairing-model is terminated! cat: SRX2969203.05_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 `SRX2969203.05_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 `SRX2969203.05_*.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 `SRX2969203.05_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, 05 Nov 2018 18:07:18: 14000000 INFO @ Mon, 05 Nov 2018 18:07:19: 14000000 INFO @ Mon, 05 Nov 2018 18:07:22: #1 tag size is determined as 49 bps INFO @ Mon, 05 Nov 2018 18:07:22: #1 tag size = 49 INFO @ Mon, 05 Nov 2018 18:07:22: #1 total tags in treatment: 14704448 INFO @ Mon, 05 Nov 2018 18:07:22: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 18:07:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 05 Nov 2018 18:07:23: #1 tags after filtering in treatment: 14704448 INFO @ Mon, 05 Nov 2018 18:07:23: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 18:07:23: #1 finished! INFO @ Mon, 05 Nov 2018 18:07:23: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 18:07:23: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 18:07:24: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 18:07:24: Too few paired peaks (0) 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, 05 Nov 2018 18:07:24: Process for pairing-model is terminated! cat: SRX2969203.20_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 `SRX2969203.20_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 `SRX2969203.20_*.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 `SRX2969203.20_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, 05 Nov 2018 18:07:24: #1 tag size is determined as 49 bps INFO @ Mon, 05 Nov 2018 18:07:24: #1 tag size = 49 INFO @ Mon, 05 Nov 2018 18:07:24: #1 total tags in treatment: 14704448 INFO @ Mon, 05 Nov 2018 18:07:24: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 18:07:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 05 Nov 2018 18:07:25: #1 tags after filtering in treatment: 14704448 INFO @ Mon, 05 Nov 2018 18:07:25: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 18:07:25: #1 finished! INFO @ Mon, 05 Nov 2018 18:07:25: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 18:07:25: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 18:07:25: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 18:07:25: Too few paired peaks (0) 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, 05 Nov 2018 18:07:25: Process for pairing-model is terminated! cat: SRX2969203.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2969203.10_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 `SRX2969203.10_*.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 `SRX2969203.10_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。