Job ID = 10937701 sra ファイルのダウンロード中... Completed: 370226K bytes transferred in 426 seconds (7110K 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 18067813 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3553637/SRR6463433.sra Written 18067813 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3553637/SRR6463433.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: 00:03:01 18067813 reads; of these: 18067813 (100.00%) were unpaired; of these: 1910378 (10.57%) aligned 0 times 14517136 (80.35%) aligned exactly 1 time 1640299 (9.08%) aligned >1 times 89.43% overall alignment rate Time searching: 00:03:01 Overall time: 00:03:01 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 8 files... [bam_rmdupse_core] 6710002 / 16157435 = 0.4153 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 @ Fri, 10 Aug 2018 03:07:18: # Command line: callpeak -t SRX3553637.bam -f BAM -g 12100000 -n SRX3553637.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3553637.10 # format = BAM # ChIP-seq file = ['SRX3553637.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 @ Fri, 10 Aug 2018 03:07:18: # Command line: callpeak -t SRX3553637.bam -f BAM -g 12100000 -n SRX3553637.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3553637.05 # format = BAM # ChIP-seq file = ['SRX3553637.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 @ Fri, 10 Aug 2018 03:07:18: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:07:18: # Command line: callpeak -t SRX3553637.bam -f BAM -g 12100000 -n SRX3553637.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3553637.20 # format = BAM # ChIP-seq file = ['SRX3553637.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 @ Fri, 10 Aug 2018 03:07:18: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:07:18: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:07:18: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:07:18: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:07:18: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:07:24: 1000000 INFO @ Fri, 10 Aug 2018 03:07:26: 1000000 INFO @ Fri, 10 Aug 2018 03:07:26: 1000000 INFO @ Fri, 10 Aug 2018 03:07:31: 2000000 INFO @ Fri, 10 Aug 2018 03:07:33: 2000000 INFO @ Fri, 10 Aug 2018 03:07:33: 2000000 INFO @ Fri, 10 Aug 2018 03:07:37: 3000000 INFO @ Fri, 10 Aug 2018 03:07:41: 3000000 INFO @ Fri, 10 Aug 2018 03:07:41: 3000000 INFO @ Fri, 10 Aug 2018 03:07:43: 4000000 INFO @ Fri, 10 Aug 2018 03:07:49: 4000000 INFO @ Fri, 10 Aug 2018 03:07:49: 4000000 INFO @ Fri, 10 Aug 2018 03:07:50: 5000000 INFO @ Fri, 10 Aug 2018 03:07:56: 6000000 INFO @ Fri, 10 Aug 2018 03:07:57: 5000000 INFO @ Fri, 10 Aug 2018 03:07:57: 5000000 INFO @ Fri, 10 Aug 2018 03:08:03: 7000000 INFO @ Fri, 10 Aug 2018 03:08:05: 6000000 INFO @ Fri, 10 Aug 2018 03:08:05: 6000000 INFO @ Fri, 10 Aug 2018 03:08:09: 8000000 INFO @ Fri, 10 Aug 2018 03:08:12: 7000000 INFO @ Fri, 10 Aug 2018 03:08:12: 7000000 INFO @ Fri, 10 Aug 2018 03:08:15: 9000000 INFO @ Fri, 10 Aug 2018 03:08:18: #1 tag size is determined as 50 bps INFO @ Fri, 10 Aug 2018 03:08:18: #1 tag size = 50 INFO @ Fri, 10 Aug 2018 03:08:18: #1 total tags in treatment: 9447433 INFO @ Fri, 10 Aug 2018 03:08:18: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:08:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 03:08:18: #1 tags after filtering in treatment: 9447433 INFO @ Fri, 10 Aug 2018 03:08:18: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:08:18: #1 finished! INFO @ Fri, 10 Aug 2018 03:08:18: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:08:18: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:08:19: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:08:19: 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 @ Fri, 10 Aug 2018 03:08:19: Process for pairing-model is terminated! cat: SRX3553637.10_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 `SRX3553637.10_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 `SRX3553637.10_*.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 `SRX3553637.10_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 @ Fri, 10 Aug 2018 03:08:20: 8000000 INFO @ Fri, 10 Aug 2018 03:08:20: 8000000 INFO @ Fri, 10 Aug 2018 03:08:28: 9000000 INFO @ Fri, 10 Aug 2018 03:08:28: 9000000 INFO @ Fri, 10 Aug 2018 03:08:31: #1 tag size is determined as 50 bps INFO @ Fri, 10 Aug 2018 03:08:31: #1 tag size = 50 INFO @ Fri, 10 Aug 2018 03:08:31: #1 total tags in treatment: 9447433 INFO @ Fri, 10 Aug 2018 03:08:31: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:08:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 03:08:31: #1 tag size is determined as 50 bps INFO @ Fri, 10 Aug 2018 03:08:31: #1 tag size = 50 INFO @ Fri, 10 Aug 2018 03:08:31: #1 total tags in treatment: 9447433 INFO @ Fri, 10 Aug 2018 03:08:31: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:08:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 03:08:31: #1 tags after filtering in treatment: 9447433 INFO @ Fri, 10 Aug 2018 03:08:31: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:08:31: #1 finished! INFO @ Fri, 10 Aug 2018 03:08:31: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:08:31: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:08:31: #1 tags after filtering in treatment: 9447433 INFO @ Fri, 10 Aug 2018 03:08:31: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:08:31: #1 finished! INFO @ Fri, 10 Aug 2018 03:08:31: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:08:31: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:08:32: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:08:32: 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 @ Fri, 10 Aug 2018 03:08:32: Process for pairing-model is terminated! INFO @ Fri, 10 Aug 2018 03:08:32: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:08:32: 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 @ Fri, 10 Aug 2018 03:08:32: Process for pairing-model is terminated! cat: SRX3553637.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX3553637.05_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3553637.20_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 `SRX3553637.20_*.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 `SRX3553637.05_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 `SRX3553637.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3553637.05_*.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 `SRX3553637.05_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 CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。