Job ID = 10937738 sra ファイルのダウンロード中... Completed: 371268K bytes transferred in 15 seconds (192081K 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 10889591 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3557778/SRR6467847.sra Written 10889591 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3557778/SRR6467847.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: 00:02:18 10889591 reads; of these: 10889591 (100.00%) were unpaired; of these: 236200 (2.17%) aligned 0 times 9413958 (86.45%) aligned exactly 1 time 1239433 (11.38%) aligned >1 times 97.83% overall alignment rate Time searching: 00:02:18 Overall time: 00:02:18 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] 2507987 / 10653391 = 0.2354 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 03:00:27: # Command line: callpeak -t SRX3557778.bam -f BAM -g 12100000 -n SRX3557778.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3557778.05 # format = BAM # ChIP-seq file = ['SRX3557778.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 03:00:27: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:00:27: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:00:27: # Command line: callpeak -t SRX3557778.bam -f BAM -g 12100000 -n SRX3557778.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3557778.10 # format = BAM # ChIP-seq file = ['SRX3557778.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 03:00:27: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:00:27: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:00:27: # Command line: callpeak -t SRX3557778.bam -f BAM -g 12100000 -n SRX3557778.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3557778.20 # format = BAM # ChIP-seq file = ['SRX3557778.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 03:00:27: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:00:27: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:00:33: 1000000 INFO @ Fri, 10 Aug 2018 03:00:33: 1000000 INFO @ Fri, 10 Aug 2018 03:00:33: 1000000 INFO @ Fri, 10 Aug 2018 03:00:39: 2000000 INFO @ Fri, 10 Aug 2018 03:00:40: 2000000 INFO @ Fri, 10 Aug 2018 03:00:40: 2000000 INFO @ Fri, 10 Aug 2018 03:00:46: 3000000 INFO @ Fri, 10 Aug 2018 03:00:46: 3000000 INFO @ Fri, 10 Aug 2018 03:00:46: 3000000 INFO @ Fri, 10 Aug 2018 03:00:52: 4000000 INFO @ Fri, 10 Aug 2018 03:00:53: 4000000 INFO @ Fri, 10 Aug 2018 03:00:53: 4000000 INFO @ Fri, 10 Aug 2018 03:00:58: 5000000 INFO @ Fri, 10 Aug 2018 03:00:59: 5000000 INFO @ Fri, 10 Aug 2018 03:01:00: 5000000 INFO @ Fri, 10 Aug 2018 03:01:04: 6000000 INFO @ Fri, 10 Aug 2018 03:01:06: 6000000 INFO @ Fri, 10 Aug 2018 03:01:06: 6000000 INFO @ Fri, 10 Aug 2018 03:01:11: 7000000 INFO @ Fri, 10 Aug 2018 03:01:13: 7000000 INFO @ Fri, 10 Aug 2018 03:01:14: 7000000 INFO @ Fri, 10 Aug 2018 03:01:18: 8000000 INFO @ Fri, 10 Aug 2018 03:01:18: #1 tag size is determined as 65 bps INFO @ Fri, 10 Aug 2018 03:01:18: #1 tag size = 65 INFO @ Fri, 10 Aug 2018 03:01:18: #1 total tags in treatment: 8145404 INFO @ Fri, 10 Aug 2018 03:01:18: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:01:18: #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 03:01:19: #1 tags after filtering in treatment: 8145404 INFO @ Fri, 10 Aug 2018 03:01:19: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:01:19: #1 finished! INFO @ Fri, 10 Aug 2018 03:01:19: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:01:19: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:01:19: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:01:19: 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 03:01:19: Process for pairing-model is terminated! cat: SRX3557778.10_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 `SRX3557778.10_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 `SRX3557778.10_*.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 `SRX3557778.10_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 03:01:20: 8000000 INFO @ Fri, 10 Aug 2018 03:01:21: 8000000 INFO @ Fri, 10 Aug 2018 03:01:21: #1 tag size is determined as 65 bps INFO @ Fri, 10 Aug 2018 03:01:21: #1 tag size = 65 INFO @ Fri, 10 Aug 2018 03:01:21: #1 total tags in treatment: 8145404 INFO @ Fri, 10 Aug 2018 03:01:21: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:01:21: #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 03:01:21: #1 tags after filtering in treatment: 8145404 INFO @ Fri, 10 Aug 2018 03:01:21: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:01:21: #1 finished! INFO @ Fri, 10 Aug 2018 03:01:21: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:01:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:01:21: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:01:21: 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 03:01:21: Process for pairing-model is terminated! cat: SRX3557778.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3557778.20_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 `SRX3557778.20_*.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 `SRX3557778.20_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 @ Fri, 10 Aug 2018 03:01:22: #1 tag size is determined as 65 bps INFO @ Fri, 10 Aug 2018 03:01:22: #1 tag size = 65 INFO @ Fri, 10 Aug 2018 03:01:22: #1 total tags in treatment: 8145404 INFO @ Fri, 10 Aug 2018 03:01:22: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:01:22: #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 03:01:22: #1 tags after filtering in treatment: 8145404 INFO @ Fri, 10 Aug 2018 03:01:22: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:01:22: #1 finished! INFO @ Fri, 10 Aug 2018 03:01:22: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:01:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:01:22: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:01:22: 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 03:01:22: Process for pairing-model is terminated! cat: SRX3557778.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3557778.05_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 `SRX3557778.05_*.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 `SRX3557778.05_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。