Job ID = 2011657 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 8,526,095 reads read : 17,052,190 reads written : 17,052,190 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1146725.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: 00:06:42 8526095 reads; of these: 8526095 (100.00%) were paired; of these: 619854 (7.27%) aligned concordantly 0 times 6559709 (76.94%) aligned concordantly exactly 1 time 1346532 (15.79%) aligned concordantly >1 times ---- 619854 pairs aligned concordantly 0 times; of these: 240677 (38.83%) aligned discordantly 1 time ---- 379177 pairs aligned 0 times concordantly or discordantly; of these: 758354 mates make up the pairs; of these: 508074 (67.00%) aligned 0 times 112848 (14.88%) aligned exactly 1 time 137432 (18.12%) aligned >1 times 97.02% overall alignment rate Time searching: 00:06:42 Overall time: 00:06:42 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] 952636 / 8025412 = 0.1187 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 @ Sat, 06 Jul 2019 02:04:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.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 @ Sat, 06 Jul 2019 02:04:07: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:04:07: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:04:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.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 @ Sat, 06 Jul 2019 02:04:07: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:04:07: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:04:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.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 @ Sat, 06 Jul 2019 02:04:08: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:04:08: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:04:15: 1000000 INFO @ Sat, 06 Jul 2019 02:04:16: 1000000 INFO @ Sat, 06 Jul 2019 02:04:17: 1000000 INFO @ Sat, 06 Jul 2019 02:04:22: 2000000 INFO @ Sat, 06 Jul 2019 02:04:25: 2000000 INFO @ Sat, 06 Jul 2019 02:04:26: 2000000 INFO @ Sat, 06 Jul 2019 02:04:30: 3000000 INFO @ Sat, 06 Jul 2019 02:04:34: 3000000 INFO @ Sat, 06 Jul 2019 02:04:35: 3000000 INFO @ Sat, 06 Jul 2019 02:04:38: 4000000 INFO @ Sat, 06 Jul 2019 02:04:43: 4000000 INFO @ Sat, 06 Jul 2019 02:04:44: 4000000 INFO @ Sat, 06 Jul 2019 02:04:45: 5000000 INFO @ Sat, 06 Jul 2019 02:04:51: 5000000 INFO @ Sat, 06 Jul 2019 02:04:52: 6000000 INFO @ Sat, 06 Jul 2019 02:04:52: 5000000 INFO @ Sat, 06 Jul 2019 02:05:00: 7000000 INFO @ Sat, 06 Jul 2019 02:05:00: 6000000 INFO @ Sat, 06 Jul 2019 02:05:01: 6000000 INFO @ Sat, 06 Jul 2019 02:05:07: 8000000 INFO @ Sat, 06 Jul 2019 02:05:09: 7000000 INFO @ Sat, 06 Jul 2019 02:05:10: 7000000 INFO @ Sat, 06 Jul 2019 02:05:14: 9000000 INFO @ Sat, 06 Jul 2019 02:05:18: 8000000 INFO @ Sat, 06 Jul 2019 02:05:19: 8000000 INFO @ Sat, 06 Jul 2019 02:05:22: 10000000 INFO @ Sat, 06 Jul 2019 02:05:27: 9000000 INFO @ Sat, 06 Jul 2019 02:05:28: 9000000 INFO @ Sat, 06 Jul 2019 02:05:29: 11000000 INFO @ Sat, 06 Jul 2019 02:05:35: 10000000 INFO @ Sat, 06 Jul 2019 02:05:36: 12000000 INFO @ Sat, 06 Jul 2019 02:05:36: 10000000 INFO @ Sat, 06 Jul 2019 02:05:44: 13000000 INFO @ Sat, 06 Jul 2019 02:05:44: 11000000 INFO @ Sat, 06 Jul 2019 02:05:45: 11000000 INFO @ Sat, 06 Jul 2019 02:05:51: 14000000 INFO @ Sat, 06 Jul 2019 02:05:53: 12000000 INFO @ Sat, 06 Jul 2019 02:05:54: 12000000 INFO @ Sat, 06 Jul 2019 02:05:56: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:05:56: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:05:56: #1 total tags in treatment: 6969787 INFO @ Sat, 06 Jul 2019 02:05:56: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:05:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:05:56: #1 tags after filtering in treatment: 5336476 INFO @ Sat, 06 Jul 2019 02:05:56: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 02:05:56: #1 finished! INFO @ Sat, 06 Jul 2019 02:05:56: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:05:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:05:56: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:05:56: 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 @ Sat, 06 Jul 2019 02:05:56: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 02:06:02: 13000000 INFO @ Sat, 06 Jul 2019 02:06:03: 13000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.05_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/SRX455435/SRX455435.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:06:10: 14000000 INFO @ Sat, 06 Jul 2019 02:06:12: 14000000 INFO @ Sat, 06 Jul 2019 02:06:16: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:06:16: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:06:16: #1 total tags in treatment: 6969787 INFO @ Sat, 06 Jul 2019 02:06:16: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:06:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:06:16: #1 tags after filtering in treatment: 5336476 INFO @ Sat, 06 Jul 2019 02:06:16: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 02:06:16: #1 finished! INFO @ Sat, 06 Jul 2019 02:06:16: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:06:16: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 02:06:17: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:06:17: 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 @ Sat, 06 Jul 2019 02:06:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.10_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/SRX455435/SRX455435.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:06:17: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:06:17: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:06:17: #1 total tags in treatment: 6969787 INFO @ Sat, 06 Jul 2019 02:06:17: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:06:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:06:17: #1 tags after filtering in treatment: 5336476 INFO @ Sat, 06 Jul 2019 02:06:17: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 02:06:17: #1 finished! INFO @ Sat, 06 Jul 2019 02:06:17: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:06:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:06:18: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:06:18: 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 @ Sat, 06 Jul 2019 02:06:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.20_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/SRX455435/SRX455435.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455435/SRX455435.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。