Job ID = 2010568 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 4,505,320 reads read : 9,010,640 reads written : 9,010,640 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: 00:01:52 4505320 reads; of these: 4505320 (100.00%) were paired; of these: 2811389 (62.40%) aligned concordantly 0 times 1248986 (27.72%) aligned concordantly exactly 1 time 444945 (9.88%) aligned concordantly >1 times ---- 2811389 pairs aligned concordantly 0 times; of these: 17381 (0.62%) aligned discordantly 1 time ---- 2794008 pairs aligned 0 times concordantly or discordantly; of these: 5588016 mates make up the pairs; of these: 5491958 (98.28%) aligned 0 times 58550 (1.05%) aligned exactly 1 time 37508 (0.67%) aligned >1 times 39.05% overall alignment rate Time searching: 00:01:52 Overall time: 00:01:52 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] 53534 / 1709582 = 0.0313 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 23:16:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.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 23:16:43: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:16:43: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:16:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.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 23:16:44: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:16:44: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:16:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.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 23:16:45: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:16:45: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:16:52: 1000000 INFO @ Fri, 05 Jul 2019 23:16:53: 1000000 INFO @ Fri, 05 Jul 2019 23:16:53: 1000000 INFO @ Fri, 05 Jul 2019 23:17:00: 2000000 INFO @ Fri, 05 Jul 2019 23:17:01: 2000000 INFO @ Fri, 05 Jul 2019 23:17:02: 2000000 INFO @ Fri, 05 Jul 2019 23:17:09: 3000000 INFO @ Fri, 05 Jul 2019 23:17:09: 3000000 INFO @ Fri, 05 Jul 2019 23:17:10: 3000000 INFO @ Fri, 05 Jul 2019 23:17:12: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:17:12: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:17:12: #1 total tags in treatment: 1640536 INFO @ Fri, 05 Jul 2019 23:17:12: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:17:12: #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 23:17:12: #1 tags after filtering in treatment: 1241318 INFO @ Fri, 05 Jul 2019 23:17:12: #1 Redundant rate of treatment: 0.24 INFO @ Fri, 05 Jul 2019 23:17:12: #1 finished! INFO @ Fri, 05 Jul 2019 23:17:12: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:17:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:17:12: #2 number of paired peaks: 42 WARNING @ Fri, 05 Jul 2019 23:17:12: Too few paired peaks (42) 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 23:17:12: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 23:17:12: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:17:12: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:17:12: #1 total tags in treatment: 1640536 INFO @ Fri, 05 Jul 2019 23:17:12: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:17:12: #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 23:17:13: #1 tags after filtering in treatment: 1241318 INFO @ Fri, 05 Jul 2019 23:17:13: #1 Redundant rate of treatment: 0.24 INFO @ Fri, 05 Jul 2019 23:17:13: #1 finished! INFO @ Fri, 05 Jul 2019 23:17:13: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:17:13: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:17:13: #2 number of paired peaks: 42 WARNING @ Fri, 05 Jul 2019 23:17:13: Too few paired peaks (42) 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 23:17:13: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 23:17:13: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:17:13: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:17:13: #1 total tags in treatment: 1640536 INFO @ Fri, 05 Jul 2019 23:17:13: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:17:13: #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 23:17:13: #1 tags after filtering in treatment: 1241318 INFO @ Fri, 05 Jul 2019 23:17:13: #1 Redundant rate of treatment: 0.24 INFO @ Fri, 05 Jul 2019 23:17:13: #1 finished! INFO @ Fri, 05 Jul 2019 23:17:13: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:17:13: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:17:14: #2 number of paired peaks: 42 WARNING @ Fri, 05 Jul 2019 23:17:14: Too few paired peaks (42) 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 23:17:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.20_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 1 millis rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.20_model.r’: No such file or directoryrm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.20_peaks.narrowPeak’: No such file or directory needLargeMem: trying to allocate 0 bytes (limit: 17179869184)rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381269/SRX381269.05_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。