Job ID = 2008265 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 9,024,576 reads read : 18,049,152 reads written : 18,049,152 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629059.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: 00:10:26 9024576 reads; of these: 9024576 (100.00%) were paired; of these: 521007 (5.77%) aligned concordantly 0 times 7940475 (87.99%) aligned concordantly exactly 1 time 563094 (6.24%) aligned concordantly >1 times ---- 521007 pairs aligned concordantly 0 times; of these: 133088 (25.54%) aligned discordantly 1 time ---- 387919 pairs aligned 0 times concordantly or discordantly; of these: 775838 mates make up the pairs; of these: 709427 (91.44%) aligned 0 times 46017 (5.93%) aligned exactly 1 time 20394 (2.63%) aligned >1 times 96.07% overall alignment rate Time searching: 00:10:26 Overall time: 00:10:26 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] 1714514 / 8614494 = 0.1990 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 18:38:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.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 18:38:24: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:38:24: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:38:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.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 18:38:25: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:38:25: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:38:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.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 18:38:26: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:38:26: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:38:36: 1000000 INFO @ Fri, 05 Jul 2019 18:38:37: 1000000 INFO @ Fri, 05 Jul 2019 18:38:38: 1000000 INFO @ Fri, 05 Jul 2019 18:38:48: 2000000 INFO @ Fri, 05 Jul 2019 18:38:49: 2000000 INFO @ Fri, 05 Jul 2019 18:38:51: 2000000 INFO @ Fri, 05 Jul 2019 18:38:59: 3000000 INFO @ Fri, 05 Jul 2019 18:39:01: 3000000 INFO @ Fri, 05 Jul 2019 18:39:04: 3000000 INFO @ Fri, 05 Jul 2019 18:39:10: 4000000 INFO @ Fri, 05 Jul 2019 18:39:14: 4000000 INFO @ Fri, 05 Jul 2019 18:39:17: 4000000 INFO @ Fri, 05 Jul 2019 18:39:21: 5000000 INFO @ Fri, 05 Jul 2019 18:39:26: 5000000 INFO @ Fri, 05 Jul 2019 18:39:30: 5000000 INFO @ Fri, 05 Jul 2019 18:39:31: 6000000 INFO @ Fri, 05 Jul 2019 18:39:39: 6000000 INFO @ Fri, 05 Jul 2019 18:39:42: 7000000 INFO @ Fri, 05 Jul 2019 18:39:43: 6000000 INFO @ Fri, 05 Jul 2019 18:39:51: 7000000 INFO @ Fri, 05 Jul 2019 18:39:53: 8000000 INFO @ Fri, 05 Jul 2019 18:39:56: 7000000 INFO @ Fri, 05 Jul 2019 18:40:03: 8000000 INFO @ Fri, 05 Jul 2019 18:40:03: 9000000 INFO @ Fri, 05 Jul 2019 18:40:09: 8000000 INFO @ Fri, 05 Jul 2019 18:40:14: 10000000 INFO @ Fri, 05 Jul 2019 18:40:15: 9000000 INFO @ Fri, 05 Jul 2019 18:40:21: 9000000 INFO @ Fri, 05 Jul 2019 18:40:25: 11000000 INFO @ Fri, 05 Jul 2019 18:40:27: 10000000 INFO @ Fri, 05 Jul 2019 18:40:34: 10000000 INFO @ Fri, 05 Jul 2019 18:40:35: 12000000 INFO @ Fri, 05 Jul 2019 18:40:41: 11000000 INFO @ Fri, 05 Jul 2019 18:40:46: 13000000 INFO @ Fri, 05 Jul 2019 18:40:47: 11000000 INFO @ Fri, 05 Jul 2019 18:40:54: 12000000 INFO @ Fri, 05 Jul 2019 18:40:56: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:40:56: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:40:56: #1 total tags in treatment: 6794247 INFO @ Fri, 05 Jul 2019 18:40:56: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:40:56: #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 18:40:56: #1 tags after filtering in treatment: 3590895 INFO @ Fri, 05 Jul 2019 18:40:56: #1 Redundant rate of treatment: 0.47 INFO @ Fri, 05 Jul 2019 18:40:56: #1 finished! INFO @ Fri, 05 Jul 2019 18:40:56: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:40:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:40:56: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:40:56: 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 18:40:56: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:40:59: 12000000 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.20_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/ERX585787/ERX585787.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:41:07: 13000000 INFO @ Fri, 05 Jul 2019 18:41:11: 13000000 INFO @ Fri, 05 Jul 2019 18:41:19: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:41:19: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:41:19: #1 total tags in treatment: 6794247 INFO @ Fri, 05 Jul 2019 18:41:19: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:41:19: #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 18:41:19: #1 tags after filtering in treatment: 3590895 INFO @ Fri, 05 Jul 2019 18:41:19: #1 Redundant rate of treatment: 0.47 INFO @ Fri, 05 Jul 2019 18:41:19: #1 finished! INFO @ Fri, 05 Jul 2019 18:41:19: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:41:19: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:41:19: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:41:19: 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 18:41:19: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:41:22: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:41:22: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:41:22: #1 total tags in treatment: 6794247 INFO @ Fri, 05 Jul 2019 18:41:22: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:41:22: #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 18:41:22: #1 tags after filtering in treatment: 3590895 INFO @ Fri, 05 Jul 2019 18:41:22: #1 Redundant rate of treatment: 0.47 INFO @ Fri, 05 Jul 2019 18:41:22: #1 finished! INFO @ Fri, 05 Jul 2019 18:41:22: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:41:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:41:23: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:41:23: 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 18:41:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.10_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) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.05_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.10_model.r’: No such file or directory CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585787/ERX585787.10_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。