Job ID = 4306421 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 8,983,458 reads read : 8,983,458 reads written : 8,983,458 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1542454.sra.cache’: 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: 00:01:36 8983458 reads; of these: 8983458 (100.00%) were unpaired; of these: 1173478 (13.06%) aligned 0 times 6086039 (67.75%) aligned exactly 1 time 1723941 (19.19%) aligned >1 times 86.94% overall alignment rate Time searching: 00:01:36 Overall time: 00:01:36 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_rmdupse_core] 2337478 / 7809980 = 0.2993 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Thu, 12 Dec 2019 22:48:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.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 @ Thu, 12 Dec 2019 22:48:53: #1 read tag files... INFO @ Thu, 12 Dec 2019 22:48:53: #1 read treatment tags... INFO @ Thu, 12 Dec 2019 22:49:01: 1000000 INFO @ Thu, 12 Dec 2019 22:49:08: 2000000 INFO @ Thu, 12 Dec 2019 22:49:16: 3000000 INFO @ Thu, 12 Dec 2019 22:49:23: 4000000 INFO @ Thu, 12 Dec 2019 22:49:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.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 @ Thu, 12 Dec 2019 22:49:23: #1 read tag files... INFO @ Thu, 12 Dec 2019 22:49:23: #1 read treatment tags... INFO @ Thu, 12 Dec 2019 22:49:31: 5000000 INFO @ Thu, 12 Dec 2019 22:49:32: 1000000 INFO @ Thu, 12 Dec 2019 22:49:35: #1 tag size is determined as 42 bps INFO @ Thu, 12 Dec 2019 22:49:35: #1 tag size = 42 INFO @ Thu, 12 Dec 2019 22:49:35: #1 total tags in treatment: 5472502 INFO @ Thu, 12 Dec 2019 22:49:35: #1 user defined the maximum tags... INFO @ Thu, 12 Dec 2019 22:49:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 12 Dec 2019 22:49:35: #1 tags after filtering in treatment: 5472502 INFO @ Thu, 12 Dec 2019 22:49:35: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 12 Dec 2019 22:49:35: #1 finished! INFO @ Thu, 12 Dec 2019 22:49:35: #2 Build Peak Model... INFO @ Thu, 12 Dec 2019 22:49:35: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 12 Dec 2019 22:49:36: #2 number of paired peaks: 0 WARNING @ Thu, 12 Dec 2019 22:49:36: 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 @ Thu, 12 Dec 2019 22:49:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.05_peaks.narrowPeak: No such file or directory INFO @ Thu, 12 Dec 2019 22:49:39: 2000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 12 Dec 2019 22:49:46: 3000000 BedGraph に変換中... INFO @ Thu, 12 Dec 2019 22:49:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.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 @ Thu, 12 Dec 2019 22:49:53: #1 read tag files... INFO @ Thu, 12 Dec 2019 22:49:53: #1 read treatment tags... INFO @ Thu, 12 Dec 2019 22:49:54: 4000000 INFO @ Thu, 12 Dec 2019 22:50:01: 5000000 INFO @ Thu, 12 Dec 2019 22:50:03: 1000000 INFO @ Thu, 12 Dec 2019 22:50:05: #1 tag size is determined as 42 bps INFO @ Thu, 12 Dec 2019 22:50:05: #1 tag size = 42 INFO @ Thu, 12 Dec 2019 22:50:05: #1 total tags in treatment: 5472502 INFO @ Thu, 12 Dec 2019 22:50:05: #1 user defined the maximum tags... INFO @ Thu, 12 Dec 2019 22:50:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 12 Dec 2019 22:50:05: #1 tags after filtering in treatment: 5472502 INFO @ Thu, 12 Dec 2019 22:50:05: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 12 Dec 2019 22:50:05: #1 finished! INFO @ Thu, 12 Dec 2019 22:50:05: #2 Build Peak Model... INFO @ Thu, 12 Dec 2019 22:50:05: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 12 Dec 2019 22:50:05: #2 number of paired peaks: 0 WARNING @ Thu, 12 Dec 2019 22:50:05: 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 @ Thu, 12 Dec 2019 22:50:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.10_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/SRX673884/SRX673884.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 12 Dec 2019 22:50:13: 2000000 INFO @ Thu, 12 Dec 2019 22:50:22: 3000000 INFO @ Thu, 12 Dec 2019 22:50:32: 4000000 INFO @ Thu, 12 Dec 2019 22:50:41: 5000000 INFO @ Thu, 12 Dec 2019 22:50:46: #1 tag size is determined as 42 bps INFO @ Thu, 12 Dec 2019 22:50:46: #1 tag size = 42 INFO @ Thu, 12 Dec 2019 22:50:46: #1 total tags in treatment: 5472502 INFO @ Thu, 12 Dec 2019 22:50:46: #1 user defined the maximum tags... INFO @ Thu, 12 Dec 2019 22:50:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 12 Dec 2019 22:50:46: #1 tags after filtering in treatment: 5472502 INFO @ Thu, 12 Dec 2019 22:50:46: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 12 Dec 2019 22:50:46: #1 finished! INFO @ Thu, 12 Dec 2019 22:50:46: #2 Build Peak Model... INFO @ Thu, 12 Dec 2019 22:50:46: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 12 Dec 2019 22:50:46: #2 number of paired peaks: 0 WARNING @ Thu, 12 Dec 2019 22:50:46: 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 @ Thu, 12 Dec 2019 22:50:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.20_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/SRX673884/SRX673884.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673884/SRX673884.20_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。