Job ID = 11634655 sra ファイルのダウンロード中... Completed: 415789K bytes transferred in 7 seconds (453925K 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 15716892 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3933792/SRR7000910.sra Written 15716892 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3933792/SRR7000910.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: 00:02:48 15716892 reads; of these: 15716892 (100.00%) were unpaired; of these: 1028080 (6.54%) aligned 0 times 13071604 (83.17%) aligned exactly 1 time 1617208 (10.29%) aligned >1 times 93.46% overall alignment rate Time searching: 00:02:48 Overall time: 00:02:48 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] 8768988 / 14688812 = 0.5970 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, 15 Feb 2019 10:24:48: # Command line: callpeak -t SRX3933792.bam -f BAM -g 12100000 -n SRX3933792.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3933792.05 # format = BAM # ChIP-seq file = ['SRX3933792.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, 15 Feb 2019 10:24:48: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:24:48: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:24:48: # Command line: callpeak -t SRX3933792.bam -f BAM -g 12100000 -n SRX3933792.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3933792.20 # format = BAM # ChIP-seq file = ['SRX3933792.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, 15 Feb 2019 10:24:48: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:24:48: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:24:48: # Command line: callpeak -t SRX3933792.bam -f BAM -g 12100000 -n SRX3933792.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3933792.10 # format = BAM # ChIP-seq file = ['SRX3933792.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, 15 Feb 2019 10:24:48: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:24:48: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:24:54: 1000000 INFO @ Fri, 15 Feb 2019 10:24:54: 1000000 INFO @ Fri, 15 Feb 2019 10:24:54: 1000000 INFO @ Fri, 15 Feb 2019 10:24:59: 2000000 INFO @ Fri, 15 Feb 2019 10:24:59: 2000000 INFO @ Fri, 15 Feb 2019 10:25:00: 2000000 INFO @ Fri, 15 Feb 2019 10:25:05: 3000000 INFO @ Fri, 15 Feb 2019 10:25:05: 3000000 INFO @ Fri, 15 Feb 2019 10:25:06: 3000000 INFO @ Fri, 15 Feb 2019 10:25:11: 4000000 INFO @ Fri, 15 Feb 2019 10:25:11: 4000000 INFO @ Fri, 15 Feb 2019 10:25:12: 4000000 INFO @ Fri, 15 Feb 2019 10:25:16: 5000000 INFO @ Fri, 15 Feb 2019 10:25:17: 5000000 INFO @ Fri, 15 Feb 2019 10:25:17: 5000000 INFO @ Fri, 15 Feb 2019 10:25:21: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 10:25:21: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 10:25:21: #1 total tags in treatment: 5919824 INFO @ Fri, 15 Feb 2019 10:25:21: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:25:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 10:25:21: #1 tags after filtering in treatment: 5919824 INFO @ Fri, 15 Feb 2019 10:25:21: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:25:21: #1 finished! INFO @ Fri, 15 Feb 2019 10:25:21: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:25:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:25:22: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:25:22: 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, 15 Feb 2019 10:25:22: Process for pairing-model is terminated! cat: SRX3933792.20_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3933792.20_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 `SRX3933792.20_*.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 `SRX3933792.20_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, 15 Feb 2019 10:25:22: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 10:25:22: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 10:25:22: #1 total tags in treatment: 5919824 INFO @ Fri, 15 Feb 2019 10:25:22: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:25:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 10:25:22: #1 tags after filtering in treatment: 5919824 INFO @ Fri, 15 Feb 2019 10:25:22: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:25:22: #1 finished! INFO @ Fri, 15 Feb 2019 10:25:22: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:25:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:25:23: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:25:23: 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, 15 Feb 2019 10:25:23: Process for pairing-model is terminated! cat: SRX3933792.10_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3933792.10_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 `SRX3933792.10_*.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 `SRX3933792.10_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, 15 Feb 2019 10:25:23: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 10:25:23: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 10:25:23: #1 total tags in treatment: 5919824 INFO @ Fri, 15 Feb 2019 10:25:23: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:25:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 10:25:23: #1 tags after filtering in treatment: 5919824 INFO @ Fri, 15 Feb 2019 10:25:23: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:25:23: #1 finished! INFO @ Fri, 15 Feb 2019 10:25:23: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:25:23: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:25:23: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:25:23: 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, 15 Feb 2019 10:25:23: Process for pairing-model is terminated! cat: SRX3933792.05_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) rm: cannot remove `SRX3933792.05_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 `SRX3933792.05_*.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 `SRX3933792.05_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。