Job ID = 11193156 sra ファイルのダウンロード中... Completed: 470922K bytes transferred in 9 seconds (390002K 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: PAIRED fastq に変換中... Read 14086668 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4337748/SRR7467855.sra Written 14086668 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4337748/SRR7467855.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: 00:02:44 14086668 reads; of these: 14086668 (100.00%) were paired; of these: 13392344 (95.07%) aligned concordantly 0 times 564308 (4.01%) aligned concordantly exactly 1 time 130016 (0.92%) aligned concordantly >1 times ---- 13392344 pairs aligned concordantly 0 times; of these: 81697 (0.61%) aligned discordantly 1 time ---- 13310647 pairs aligned 0 times concordantly or discordantly; of these: 26621294 mates make up the pairs; of these: 26038996 (97.81%) aligned 0 times 463086 (1.74%) aligned exactly 1 time 119212 (0.45%) aligned >1 times 7.58% overall alignment rate Time searching: 00:02:44 Overall time: 00:02:44 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_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 264788 / 773608 = 0.3423 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 @ Sat, 15 Sep 2018 11:06:42: # Command line: callpeak -t SRX4337748.bam -f BAM -g 12100000 -n SRX4337748.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4337748.10 # format = BAM # ChIP-seq file = ['SRX4337748.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 @ Sat, 15 Sep 2018 11:06:42: #1 read tag files... INFO @ Sat, 15 Sep 2018 11:06:42: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 11:06:42: # Command line: callpeak -t SRX4337748.bam -f BAM -g 12100000 -n SRX4337748.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4337748.20 # format = BAM # ChIP-seq file = ['SRX4337748.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 @ Sat, 15 Sep 2018 11:06:42: #1 read tag files... INFO @ Sat, 15 Sep 2018 11:06:42: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 11:06:42: # Command line: callpeak -t SRX4337748.bam -f BAM -g 12100000 -n SRX4337748.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4337748.05 # format = BAM # ChIP-seq file = ['SRX4337748.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 @ Sat, 15 Sep 2018 11:06:42: #1 read tag files... INFO @ Sat, 15 Sep 2018 11:06:42: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 11:06:49: 1000000 INFO @ Sat, 15 Sep 2018 11:06:49: 1000000 INFO @ Sat, 15 Sep 2018 11:06:49: 1000000 INFO @ Sat, 15 Sep 2018 11:06:53: #1 tag size is determined as 39 bps INFO @ Sat, 15 Sep 2018 11:06:53: #1 tag size = 39 INFO @ Sat, 15 Sep 2018 11:06:53: #1 total tags in treatment: 480231 INFO @ Sat, 15 Sep 2018 11:06:53: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 11:06:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 11:06:53: #1 tag size is determined as 39 bps INFO @ Sat, 15 Sep 2018 11:06:53: #1 tag size = 39 INFO @ Sat, 15 Sep 2018 11:06:53: #1 total tags in treatment: 480231 INFO @ Sat, 15 Sep 2018 11:06:53: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 11:06:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 11:06:53: #1 tags after filtering in treatment: 431802 INFO @ Sat, 15 Sep 2018 11:06:53: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 15 Sep 2018 11:06:53: #1 finished! INFO @ Sat, 15 Sep 2018 11:06:53: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 11:06:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 11:06:53: #1 tag size is determined as 39 bps INFO @ Sat, 15 Sep 2018 11:06:53: #1 tag size = 39 INFO @ Sat, 15 Sep 2018 11:06:53: #1 total tags in treatment: 480231 INFO @ Sat, 15 Sep 2018 11:06:53: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 11:06:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 11:06:53: #1 tags after filtering in treatment: 431802 INFO @ Sat, 15 Sep 2018 11:06:53: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 15 Sep 2018 11:06:53: #1 finished! INFO @ Sat, 15 Sep 2018 11:06:53: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 11:06:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 11:06:53: #1 tags after filtering in treatment: 431802 INFO @ Sat, 15 Sep 2018 11:06:53: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 15 Sep 2018 11:06:53: #1 finished! INFO @ Sat, 15 Sep 2018 11:06:53: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 11:06:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 11:06:54: #2 number of paired peaks: 49 WARNING @ Sat, 15 Sep 2018 11:06:54: Too few paired peaks (49) 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 @ Sat, 15 Sep 2018 11:06:54: Process for pairing-model is terminated! INFO @ Sat, 15 Sep 2018 11:06:54: #2 number of paired peaks: 49 WARNING @ Sat, 15 Sep 2018 11:06:54: Too few paired peaks (49) 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 @ Sat, 15 Sep 2018 11:06:54: Process for pairing-model is terminated! cat: SRX4337748.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX4337748.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Sat, 15 Sep 2018 11:06:54: #2 number of paired peaks: 49 WARNING @ Sat, 15 Sep 2018 11:06:54: Too few paired peaks (49) 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 @ Sat, 15 Sep 2018 11:06:54: Process for pairing-model is terminated! cat: SRX4337748.10_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 pass1 - making usageList (0 chroms): 1 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184)needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4337748.05_model.r'rm: cannot remove `SRX4337748.10_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: : そのようなファイルやディレクトリはありませんcannot remove `SRX4337748.20_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 `SRX4337748.05_*.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 `SRX4337748.10_*.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 `SRX4337748.20_*.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 `SRX4337748.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4337748.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4337748.20_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 CompletedMACS2peakCalling CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。