Job ID = 2011828 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 1,034,760 reads read : 2,069,520 reads written : 2,069,520 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: 00:00:39 1034760 reads; of these: 1034760 (100.00%) were paired; of these: 471164 (45.53%) aligned concordantly 0 times 316206 (30.56%) aligned concordantly exactly 1 time 247390 (23.91%) aligned concordantly >1 times ---- 471164 pairs aligned concordantly 0 times; of these: 1218 (0.26%) aligned discordantly 1 time ---- 469946 pairs aligned 0 times concordantly or discordantly; of these: 939892 mates make up the pairs; of these: 912752 (97.11%) aligned 0 times 16288 (1.73%) aligned exactly 1 time 10852 (1.15%) aligned >1 times 55.90% overall alignment rate Time searching: 00:00:39 Overall time: 00:00:39 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] 26333 / 564412 = 0.0467 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, 06 Jul 2019 02:47:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.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, 06 Jul 2019 02:47:04: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:47:04: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:47:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.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, 06 Jul 2019 02:47:05: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:47:05: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:47:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.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, 06 Jul 2019 02:47:06: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:47:06: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:47:12: 1000000 INFO @ Sat, 06 Jul 2019 02:47:12: 1000000 INFO @ Sat, 06 Jul 2019 02:47:13: #1 tag size is determined as 76 bps INFO @ Sat, 06 Jul 2019 02:47:13: #1 tag size = 76 INFO @ Sat, 06 Jul 2019 02:47:13: #1 total tags in treatment: 537294 INFO @ Sat, 06 Jul 2019 02:47:13: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:47:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:47:13: #1 tags after filtering in treatment: 335505 INFO @ Sat, 06 Jul 2019 02:47:13: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 06 Jul 2019 02:47:13: #1 finished! INFO @ Sat, 06 Jul 2019 02:47:13: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:47:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:47:13: #1 tag size is determined as 76 bps INFO @ Sat, 06 Jul 2019 02:47:13: #1 tag size = 76 INFO @ Sat, 06 Jul 2019 02:47:13: #1 total tags in treatment: 537294 INFO @ Sat, 06 Jul 2019 02:47:13: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:47:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:47:13: #1 tags after filtering in treatment: 335505 INFO @ Sat, 06 Jul 2019 02:47:13: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 06 Jul 2019 02:47:13: #1 finished! INFO @ Sat, 06 Jul 2019 02:47:13: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:47:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:47:13: #2 number of paired peaks: 83 WARNING @ Sat, 06 Jul 2019 02:47:13: Too few paired peaks (83) 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, 06 Jul 2019 02:47:13: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 02:47:13: #2 number of paired peaks: 83 WARNING @ Sat, 06 Jul 2019 02:47:13: Too few paired peaks (83) 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, 06 Jul 2019 02:47:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.10_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/SRX5123300/SRX5123300.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:47:14: 1000000 INFO @ Sat, 06 Jul 2019 02:47:15: #1 tag size is determined as 76 bps INFO @ Sat, 06 Jul 2019 02:47:15: #1 tag size = 76 INFO @ Sat, 06 Jul 2019 02:47:15: #1 total tags in treatment: 537294 INFO @ Sat, 06 Jul 2019 02:47:15: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:47:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:47:15: #1 tags after filtering in treatment: 335505 INFO @ Sat, 06 Jul 2019 02:47:15: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 06 Jul 2019 02:47:15: #1 finished! INFO @ Sat, 06 Jul 2019 02:47:15: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:47:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:47:15: #2 number of paired peaks: 83 WARNING @ Sat, 06 Jul 2019 02:47:15: Too few paired peaks (83) 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, 06 Jul 2019 02:47:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.20_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/SRX5123300/SRX5123300.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5123300/SRX5123300.20_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。