Job ID = 2008144 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 13,572,342 reads read : 27,144,684 reads written : 27,144,684 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: 00:11:03 13572342 reads; of these: 13572342 (100.00%) were paired; of these: 661172 (4.87%) aligned concordantly 0 times 10610744 (78.18%) aligned concordantly exactly 1 time 2300426 (16.95%) aligned concordantly >1 times ---- 661172 pairs aligned concordantly 0 times; of these: 49857 (7.54%) aligned discordantly 1 time ---- 611315 pairs aligned 0 times concordantly or discordantly; of these: 1222630 mates make up the pairs; of these: 1152457 (94.26%) aligned 0 times 38965 (3.19%) aligned exactly 1 time 31208 (2.55%) aligned >1 times 95.75% overall alignment rate Time searching: 00:11:03 Overall time: 00:11:03 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 12 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] 689051 / 12915952 = 0.0533 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 18:26:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.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 18:26:25: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:26:25: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:26:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.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 18:26:26: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:26:26: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:26:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.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 18:26:31: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:26:31: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:26:33: 1000000 INFO @ Fri, 05 Jul 2019 18:26:35: 1000000 INFO @ Fri, 05 Jul 2019 18:26:39: 1000000 INFO @ Fri, 05 Jul 2019 18:26:42: 2000000 INFO @ Fri, 05 Jul 2019 18:26:43: 2000000 INFO @ Fri, 05 Jul 2019 18:26:48: 2000000 INFO @ Fri, 05 Jul 2019 18:26:50: 3000000 INFO @ Fri, 05 Jul 2019 18:26:52: 3000000 INFO @ Fri, 05 Jul 2019 18:26:56: 3000000 INFO @ Fri, 05 Jul 2019 18:26:59: 4000000 INFO @ Fri, 05 Jul 2019 18:27:00: 4000000 INFO @ Fri, 05 Jul 2019 18:27:04: 4000000 INFO @ Fri, 05 Jul 2019 18:27:07: 5000000 INFO @ Fri, 05 Jul 2019 18:27:08: 5000000 INFO @ Fri, 05 Jul 2019 18:27:12: 5000000 INFO @ Fri, 05 Jul 2019 18:27:16: 6000000 INFO @ Fri, 05 Jul 2019 18:27:17: 6000000 INFO @ Fri, 05 Jul 2019 18:27:20: 6000000 INFO @ Fri, 05 Jul 2019 18:27:24: 7000000 INFO @ Fri, 05 Jul 2019 18:27:25: 7000000 INFO @ Fri, 05 Jul 2019 18:27:29: 7000000 INFO @ Fri, 05 Jul 2019 18:27:32: 8000000 INFO @ Fri, 05 Jul 2019 18:27:34: 8000000 INFO @ Fri, 05 Jul 2019 18:27:37: 8000000 INFO @ Fri, 05 Jul 2019 18:27:41: 9000000 INFO @ Fri, 05 Jul 2019 18:27:42: 9000000 INFO @ Fri, 05 Jul 2019 18:27:45: 9000000 INFO @ Fri, 05 Jul 2019 18:27:50: 10000000 INFO @ Fri, 05 Jul 2019 18:27:51: 10000000 INFO @ Fri, 05 Jul 2019 18:27:53: 10000000 INFO @ Fri, 05 Jul 2019 18:27:58: 11000000 INFO @ Fri, 05 Jul 2019 18:28:00: 11000000 INFO @ Fri, 05 Jul 2019 18:28:01: 11000000 INFO @ Fri, 05 Jul 2019 18:28:07: 12000000 INFO @ Fri, 05 Jul 2019 18:28:08: 12000000 INFO @ Fri, 05 Jul 2019 18:28:08: 12000000 INFO @ Fri, 05 Jul 2019 18:28:16: 13000000 INFO @ Fri, 05 Jul 2019 18:28:16: 13000000 INFO @ Fri, 05 Jul 2019 18:28:17: 13000000 INFO @ Fri, 05 Jul 2019 18:28:23: 14000000 INFO @ Fri, 05 Jul 2019 18:28:25: 14000000 INFO @ Fri, 05 Jul 2019 18:28:26: 14000000 INFO @ Fri, 05 Jul 2019 18:28:30: 15000000 INFO @ Fri, 05 Jul 2019 18:28:33: 15000000 INFO @ Fri, 05 Jul 2019 18:28:34: 15000000 INFO @ Fri, 05 Jul 2019 18:28:37: 16000000 INFO @ Fri, 05 Jul 2019 18:28:41: 16000000 INFO @ Fri, 05 Jul 2019 18:28:43: 16000000 INFO @ Fri, 05 Jul 2019 18:28:44: 17000000 INFO @ Fri, 05 Jul 2019 18:28:50: 17000000 INFO @ Fri, 05 Jul 2019 18:28:51: 17000000 INFO @ Fri, 05 Jul 2019 18:28:51: 18000000 INFO @ Fri, 05 Jul 2019 18:28:58: 18000000 INFO @ Fri, 05 Jul 2019 18:28:58: 19000000 INFO @ Fri, 05 Jul 2019 18:29:00: 18000000 INFO @ Fri, 05 Jul 2019 18:29:07: 20000000 INFO @ Fri, 05 Jul 2019 18:29:07: 19000000 INFO @ Fri, 05 Jul 2019 18:29:08: 19000000 INFO @ Fri, 05 Jul 2019 18:29:15: 20000000 INFO @ Fri, 05 Jul 2019 18:29:15: 21000000 INFO @ Fri, 05 Jul 2019 18:29:16: 20000000 INFO @ Fri, 05 Jul 2019 18:29:22: 21000000 INFO @ Fri, 05 Jul 2019 18:29:24: 22000000 INFO @ Fri, 05 Jul 2019 18:29:24: 21000000 INFO @ Fri, 05 Jul 2019 18:29:30: 22000000 INFO @ Fri, 05 Jul 2019 18:29:31: 22000000 INFO @ Fri, 05 Jul 2019 18:29:32: 23000000 INFO @ Fri, 05 Jul 2019 18:29:37: 23000000 INFO @ Fri, 05 Jul 2019 18:29:39: 23000000 INFO @ Fri, 05 Jul 2019 18:29:41: 24000000 INFO @ Fri, 05 Jul 2019 18:29:45: 24000000 INFO @ Fri, 05 Jul 2019 18:29:46: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 18:29:46: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 18:29:46: #1 total tags in treatment: 12222155 INFO @ Fri, 05 Jul 2019 18:29:46: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:29:46: #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 18:29:46: #1 tags after filtering in treatment: 8501190 INFO @ Fri, 05 Jul 2019 18:29:46: #1 Redundant rate of treatment: 0.30 INFO @ Fri, 05 Jul 2019 18:29:46: #1 finished! INFO @ Fri, 05 Jul 2019 18:29:46: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:29:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:29:46: 24000000 INFO @ Fri, 05 Jul 2019 18:29:47: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:29:47: 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 18:29:47: Process for pairing-model is terminated! BedGraph に変換しました。 INFO @ Fri, 05 Jul 2019 18:29:49: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 18:29:49: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 18:29:49: #1 total tags in treatment: 12222155 INFO @ Fri, 05 Jul 2019 18:29:49: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:29:49: #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 18:29:50: #1 tags after filtering in treatment: 8501190 INFO @ Fri, 05 Jul 2019 18:29:50: #1 Redundant rate of treatment: 0.30 INFO @ Fri, 05 Jul 2019 18:29:50: #1 finished! INFO @ Fri, 05 Jul 2019 18:29:50: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:29:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:29:50: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:29:50: 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 18:29:50: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:29:51: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 18:29:51: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 18:29:51: #1 total tags in treatment: 12222155 INFO @ Fri, 05 Jul 2019 18:29:51: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:29:51: #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 18:29:51: #1 tags after filtering in treatment: 8501190 INFO @ Fri, 05 Jul 2019 18:29:51: #1 Redundant rate of treatment: 0.30 INFO @ Fri, 05 Jul 2019 18:29:51: #1 finished! INFO @ Fri, 05 Jul 2019 18:29:51: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:29:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:29:52: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:29:52: 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 18:29:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.20_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.10_peaks.narrowPeakcut: : No such file or directory/home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.05_peaks.narrowPeak : No such file or directory BigWig に変換中... pass1 - making usageList (0 chroms): 1 millis pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.20_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.10_peaks.narrowPeak’: No such file or directoryCompletedMACS2peakCalling CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX516014/ERX516014.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。