Job ID = 2008216 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 9,286,360 reads read : 18,572,720 reads written : 18,572,720 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: 00:10:42 9286360 reads; of these: 9286360 (100.00%) were paired; of these: 369783 (3.98%) aligned concordantly 0 times 8137201 (87.63%) aligned concordantly exactly 1 time 779376 (8.39%) aligned concordantly >1 times ---- 369783 pairs aligned concordantly 0 times; of these: 183390 (49.59%) aligned discordantly 1 time ---- 186393 pairs aligned 0 times concordantly or discordantly; of these: 372786 mates make up the pairs; of these: 251653 (67.51%) aligned 0 times 81189 (21.78%) aligned exactly 1 time 39944 (10.71%) aligned >1 times 98.65% overall alignment rate Time searching: 00:10:42 Overall time: 00:10:42 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_sort_core] merging from 8 files... [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] 1592407 / 9074180 = 0.1755 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 18:18:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.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 18:18:11: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:18:11: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:18:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.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 18:18:12: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:18:12: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:18:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.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 18:18:13: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:18:13: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:18:21: 1000000 INFO @ Fri, 05 Jul 2019 18:18:22: 1000000 INFO @ Fri, 05 Jul 2019 18:18:22: 1000000 INFO @ Fri, 05 Jul 2019 18:18:31: 2000000 INFO @ Fri, 05 Jul 2019 18:18:31: 2000000 INFO @ Fri, 05 Jul 2019 18:18:32: 2000000 INFO @ Fri, 05 Jul 2019 18:18:40: 3000000 INFO @ Fri, 05 Jul 2019 18:18:42: 3000000 INFO @ Fri, 05 Jul 2019 18:18:42: 3000000 INFO @ Fri, 05 Jul 2019 18:18:49: 4000000 INFO @ Fri, 05 Jul 2019 18:18:52: 4000000 INFO @ Fri, 05 Jul 2019 18:18:52: 4000000 INFO @ Fri, 05 Jul 2019 18:18:57: 5000000 INFO @ Fri, 05 Jul 2019 18:19:02: 5000000 INFO @ Fri, 05 Jul 2019 18:19:02: 5000000 INFO @ Fri, 05 Jul 2019 18:19:06: 6000000 INFO @ Fri, 05 Jul 2019 18:19:12: 6000000 INFO @ Fri, 05 Jul 2019 18:19:12: 6000000 INFO @ Fri, 05 Jul 2019 18:19:14: 7000000 INFO @ Fri, 05 Jul 2019 18:19:22: 8000000 INFO @ Fri, 05 Jul 2019 18:19:22: 7000000 INFO @ Fri, 05 Jul 2019 18:19:22: 7000000 INFO @ Fri, 05 Jul 2019 18:19:30: 9000000 INFO @ Fri, 05 Jul 2019 18:19:31: 8000000 INFO @ Fri, 05 Jul 2019 18:19:32: 8000000 INFO @ Fri, 05 Jul 2019 18:19:39: 10000000 INFO @ Fri, 05 Jul 2019 18:19:40: 9000000 INFO @ Fri, 05 Jul 2019 18:19:41: 9000000 INFO @ Fri, 05 Jul 2019 18:19:47: 11000000 INFO @ Fri, 05 Jul 2019 18:19:49: 10000000 INFO @ Fri, 05 Jul 2019 18:19:51: 10000000 INFO @ Fri, 05 Jul 2019 18:19:55: 12000000 INFO @ Fri, 05 Jul 2019 18:19:59: 11000000 INFO @ Fri, 05 Jul 2019 18:20:00: 11000000 INFO @ Fri, 05 Jul 2019 18:20:05: 13000000 INFO @ Fri, 05 Jul 2019 18:20:09: 12000000 INFO @ Fri, 05 Jul 2019 18:20:10: 12000000 INFO @ Fri, 05 Jul 2019 18:20:14: 14000000 INFO @ Fri, 05 Jul 2019 18:20:19: 13000000 INFO @ Fri, 05 Jul 2019 18:20:20: 13000000 INFO @ Fri, 05 Jul 2019 18:20:23: 15000000 INFO @ Fri, 05 Jul 2019 18:20:25: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:20:25: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:20:25: #1 total tags in treatment: 7330363 INFO @ Fri, 05 Jul 2019 18:20:25: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:20:25: #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 18:20:25: #1 tags after filtering in treatment: 3918711 INFO @ Fri, 05 Jul 2019 18:20:25: #1 Redundant rate of treatment: 0.47 INFO @ Fri, 05 Jul 2019 18:20:25: #1 finished! INFO @ Fri, 05 Jul 2019 18:20:25: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:20:25: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:20:25: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:20:25: 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 @ Fri, 05 Jul 2019 18:20:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.20_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/ERX585744/ERX585744.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:20:29: 14000000 INFO @ Fri, 05 Jul 2019 18:20:29: 14000000 INFO @ Fri, 05 Jul 2019 18:20:39: 15000000 INFO @ Fri, 05 Jul 2019 18:20:40: 15000000 INFO @ Fri, 05 Jul 2019 18:20:40: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:20:40: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:20:40: #1 total tags in treatment: 7330363 INFO @ Fri, 05 Jul 2019 18:20:40: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:20:40: #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 18:20:41: #1 tags after filtering in treatment: 3918711 INFO @ Fri, 05 Jul 2019 18:20:41: #1 Redundant rate of treatment: 0.47 INFO @ Fri, 05 Jul 2019 18:20:41: #1 finished! INFO @ Fri, 05 Jul 2019 18:20:41: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:20:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:20:41: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:20:41: 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 @ Fri, 05 Jul 2019 18:20:41: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:20:41: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:20:41: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:20:41: #1 total tags in treatment: 7330363 INFO @ Fri, 05 Jul 2019 18:20:41: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:20:41: #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 18:20:41: #1 tags after filtering in treatment: 3918711 INFO @ Fri, 05 Jul 2019 18:20:41: #1 Redundant rate of treatment: 0.47 INFO @ Fri, 05 Jul 2019 18:20:41: #1 finished! INFO @ Fri, 05 Jul 2019 18:20:41: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:20:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:20:42: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:20:42: 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 @ Fri, 05 Jul 2019 18:20:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.10_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 2 millis rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585744/ERX585744.05_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。