Job ID = 2008260 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 22,914,258 reads read : 45,828,516 reads written : 45,828,516 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629040.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: 00:28:03 22914258 reads; of these: 22914258 (100.00%) were paired; of these: 5237966 (22.86%) aligned concordantly 0 times 14374592 (62.73%) aligned concordantly exactly 1 time 3301700 (14.41%) aligned concordantly >1 times ---- 5237966 pairs aligned concordantly 0 times; of these: 544038 (10.39%) aligned discordantly 1 time ---- 4693928 pairs aligned 0 times concordantly or discordantly; of these: 9387856 mates make up the pairs; of these: 8575669 (91.35%) aligned 0 times 232513 (2.48%) aligned exactly 1 time 579674 (6.17%) aligned >1 times 81.29% overall alignment rate Time searching: 00:28:03 Overall time: 00:28:03 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 16 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] 5163968 / 18157834 = 0.2844 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 19:05:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.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 19:05:07: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:05:07: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:05:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.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 19:05:07: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:05:07: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:05:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.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 19:05:08: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:05:08: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:05:18: 1000000 INFO @ Fri, 05 Jul 2019 19:05:18: 1000000 INFO @ Fri, 05 Jul 2019 19:05:18: 1000000 INFO @ Fri, 05 Jul 2019 19:05:27: 2000000 INFO @ Fri, 05 Jul 2019 19:05:27: 2000000 INFO @ Fri, 05 Jul 2019 19:05:29: 2000000 INFO @ Fri, 05 Jul 2019 19:05:35: 3000000 INFO @ Fri, 05 Jul 2019 19:05:37: 3000000 INFO @ Fri, 05 Jul 2019 19:05:41: 3000000 INFO @ Fri, 05 Jul 2019 19:05:44: 4000000 INFO @ Fri, 05 Jul 2019 19:05:47: 4000000 INFO @ Fri, 05 Jul 2019 19:05:53: 5000000 INFO @ Fri, 05 Jul 2019 19:05:53: 4000000 INFO @ Fri, 05 Jul 2019 19:05:57: 5000000 INFO @ Fri, 05 Jul 2019 19:06:01: 6000000 INFO @ Fri, 05 Jul 2019 19:06:05: 5000000 INFO @ Fri, 05 Jul 2019 19:06:06: 6000000 INFO @ Fri, 05 Jul 2019 19:06:10: 7000000 INFO @ Fri, 05 Jul 2019 19:06:16: 7000000 INFO @ Fri, 05 Jul 2019 19:06:17: 6000000 INFO @ Fri, 05 Jul 2019 19:06:18: 8000000 INFO @ Fri, 05 Jul 2019 19:06:26: 8000000 INFO @ Fri, 05 Jul 2019 19:06:27: 9000000 INFO @ Fri, 05 Jul 2019 19:06:28: 7000000 INFO @ Fri, 05 Jul 2019 19:06:35: 9000000 INFO @ Fri, 05 Jul 2019 19:06:36: 10000000 INFO @ Fri, 05 Jul 2019 19:06:40: 8000000 INFO @ Fri, 05 Jul 2019 19:06:44: 11000000 INFO @ Fri, 05 Jul 2019 19:06:45: 10000000 INFO @ Fri, 05 Jul 2019 19:06:52: 9000000 INFO @ Fri, 05 Jul 2019 19:06:53: 12000000 INFO @ Fri, 05 Jul 2019 19:06:55: 11000000 INFO @ Fri, 05 Jul 2019 19:07:02: 13000000 INFO @ Fri, 05 Jul 2019 19:07:04: 10000000 INFO @ Fri, 05 Jul 2019 19:07:05: 12000000 INFO @ Fri, 05 Jul 2019 19:07:10: 14000000 INFO @ Fri, 05 Jul 2019 19:07:15: 13000000 INFO @ Fri, 05 Jul 2019 19:07:16: 11000000 INFO @ Fri, 05 Jul 2019 19:07:19: 15000000 INFO @ Fri, 05 Jul 2019 19:07:25: 14000000 INFO @ Fri, 05 Jul 2019 19:07:28: 12000000 INFO @ Fri, 05 Jul 2019 19:07:28: 16000000 INFO @ Fri, 05 Jul 2019 19:07:35: 15000000 INFO @ Fri, 05 Jul 2019 19:07:36: 17000000 INFO @ Fri, 05 Jul 2019 19:07:39: 13000000 INFO @ Fri, 05 Jul 2019 19:07:45: 18000000 INFO @ Fri, 05 Jul 2019 19:07:45: 16000000 INFO @ Fri, 05 Jul 2019 19:07:51: 14000000 INFO @ Fri, 05 Jul 2019 19:07:53: 19000000 INFO @ Fri, 05 Jul 2019 19:07:54: 17000000 INFO @ Fri, 05 Jul 2019 19:08:02: 20000000 INFO @ Fri, 05 Jul 2019 19:08:03: 15000000 INFO @ Fri, 05 Jul 2019 19:08:04: 18000000 INFO @ Fri, 05 Jul 2019 19:08:10: 21000000 INFO @ Fri, 05 Jul 2019 19:08:13: 19000000 INFO @ Fri, 05 Jul 2019 19:08:15: 16000000 INFO @ Fri, 05 Jul 2019 19:08:18: 22000000 INFO @ Fri, 05 Jul 2019 19:08:22: 20000000 INFO @ Fri, 05 Jul 2019 19:08:27: 23000000 INFO @ Fri, 05 Jul 2019 19:08:27: 17000000 INFO @ Fri, 05 Jul 2019 19:08:32: 21000000 INFO @ Fri, 05 Jul 2019 19:08:35: 24000000 INFO @ Fri, 05 Jul 2019 19:08:38: 18000000 INFO @ Fri, 05 Jul 2019 19:08:41: 22000000 INFO @ Fri, 05 Jul 2019 19:08:43: 25000000 INFO @ Fri, 05 Jul 2019 19:08:49: 19000000 INFO @ Fri, 05 Jul 2019 19:08:50: 23000000 INFO @ Fri, 05 Jul 2019 19:08:52: 26000000 INFO @ Fri, 05 Jul 2019 19:09:00: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:09:00: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:09:00: #1 total tags in treatment: 12562004 INFO @ Fri, 05 Jul 2019 19:09:00: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:09:00: #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 19:09:00: 24000000 INFO @ Fri, 05 Jul 2019 19:09:00: 20000000 INFO @ Fri, 05 Jul 2019 19:09:00: #1 tags after filtering in treatment: 5741763 INFO @ Fri, 05 Jul 2019 19:09:00: #1 Redundant rate of treatment: 0.54 INFO @ Fri, 05 Jul 2019 19:09:00: #1 finished! INFO @ Fri, 05 Jul 2019 19:09:00: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:09:00: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:09:00: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:09:00: 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 19:09:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.20_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/ERX585782/ERX585782.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:09:09: 25000000 INFO @ Fri, 05 Jul 2019 19:09:11: 21000000 INFO @ Fri, 05 Jul 2019 19:09:18: 26000000 INFO @ Fri, 05 Jul 2019 19:09:22: 22000000 INFO @ Fri, 05 Jul 2019 19:09:26: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:09:26: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:09:26: #1 total tags in treatment: 12562004 INFO @ Fri, 05 Jul 2019 19:09:26: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:09:26: #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 19:09:27: #1 tags after filtering in treatment: 5741763 INFO @ Fri, 05 Jul 2019 19:09:27: #1 Redundant rate of treatment: 0.54 INFO @ Fri, 05 Jul 2019 19:09:27: #1 finished! INFO @ Fri, 05 Jul 2019 19:09:27: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:09:27: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:09:27: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:09:27: 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 19:09:27: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 19:09:33: 23000000 BedGraph に変換しました。 INFO @ Fri, 05 Jul 2019 19:09:44: 24000000 INFO @ Fri, 05 Jul 2019 19:09:54: 25000000 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.10_peaks.narrowPeak: No such file or directory BigWig に変換中... pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:10:05: 26000000 INFO @ Fri, 05 Jul 2019 19:10:15: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:10:15: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:10:15: #1 total tags in treatment: 12562004 INFO @ Fri, 05 Jul 2019 19:10:15: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:10:15: #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 19:10:15: #1 tags after filtering in treatment: 5741763 INFO @ Fri, 05 Jul 2019 19:10:15: #1 Redundant rate of treatment: 0.54 INFO @ Fri, 05 Jul 2019 19:10:15: #1 finished! INFO @ Fri, 05 Jul 2019 19:10:15: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:10:15: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 19:10:15: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:10:15: 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 19:10:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.05_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/ERX585782/ERX585782.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585782/ERX585782.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling