Job ID = 2007872 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 201,258 reads read : 402,516 reads written : 402,516 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:00:12 201258 reads; of these: 201258 (100.00%) were paired; of these: 28385 (14.10%) aligned concordantly 0 times 159241 (79.12%) aligned concordantly exactly 1 time 13632 (6.77%) aligned concordantly >1 times ---- 28385 pairs aligned concordantly 0 times; of these: 17759 (62.56%) aligned discordantly 1 time ---- 10626 pairs aligned 0 times concordantly or discordantly; of these: 21252 mates make up the pairs; of these: 15645 (73.62%) aligned 0 times 2249 (10.58%) aligned exactly 1 time 3358 (15.80%) aligned >1 times 96.11% overall alignment rate Time searching: 00:00:12 Overall time: 00:00:12 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] 194 / 189915 = 0.0010 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, 05 Jul 2019 16:36:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.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, 05 Jul 2019 16:36:34: #1 read tag files... INFO @ Fri, 05 Jul 2019 16:36:34: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 16:36:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.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, 05 Jul 2019 16:36:35: #1 read tag files... INFO @ Fri, 05 Jul 2019 16:36:35: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 16:36:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.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, 05 Jul 2019 16:36:36: #1 read tag files... INFO @ Fri, 05 Jul 2019 16:36:36: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 16:36:36: #1 tag size is determined as 25 bps INFO @ Fri, 05 Jul 2019 16:36:36: #1 tag size = 25 INFO @ Fri, 05 Jul 2019 16:36:36: #1 total tags in treatment: 172699 INFO @ Fri, 05 Jul 2019 16:36:36: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 16:36:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 16:36:36: #1 tags after filtering in treatment: 171985 INFO @ Fri, 05 Jul 2019 16:36:36: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 16:36:36: #1 finished! INFO @ Fri, 05 Jul 2019 16:36:36: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 16:36:36: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 16:36:36: #2 number of paired peaks: 8 WARNING @ Fri, 05 Jul 2019 16:36:36: Too few paired peaks (8) 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, 05 Jul 2019 16:36:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 16:36:37: #1 tag size is determined as 25 bps INFO @ Fri, 05 Jul 2019 16:36:37: #1 tag size = 25 INFO @ Fri, 05 Jul 2019 16:36:37: #1 total tags in treatment: 172699 INFO @ Fri, 05 Jul 2019 16:36:37: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 16:36:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 16:36:37: #1 tags after filtering in treatment: 171985 INFO @ Fri, 05 Jul 2019 16:36:37: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 16:36:37: #1 finished! INFO @ Fri, 05 Jul 2019 16:36:37: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 16:36:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 16:36:37: #2 number of paired peaks: 8 WARNING @ Fri, 05 Jul 2019 16:36:37: Too few paired peaks (8) 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, 05 Jul 2019 16:36:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 16:36:39: #1 tag size is determined as 25 bps INFO @ Fri, 05 Jul 2019 16:36:39: #1 tag size = 25 INFO @ Fri, 05 Jul 2019 16:36:39: #1 total tags in treatment: 172699 INFO @ Fri, 05 Jul 2019 16:36:39: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 16:36:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 16:36:39: #1 tags after filtering in treatment: 171985 INFO @ Fri, 05 Jul 2019 16:36:39: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 16:36:39: #1 finished! INFO @ Fri, 05 Jul 2019 16:36:39: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 16:36:39: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 16:36:39: #2 number of paired peaks: 8 WARNING @ Fri, 05 Jul 2019 16:36:39: Too few paired peaks (8) 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, 05 Jul 2019 16:36:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX462411/ERX462411.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。