Job ID = 2010729 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 8,954,097 reads read : 17,908,194 reads written : 17,908,194 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: 00:08:02 8954097 reads; of these: 8954097 (100.00%) were paired; of these: 962424 (10.75%) aligned concordantly 0 times 7461827 (83.33%) aligned concordantly exactly 1 time 529846 (5.92%) aligned concordantly >1 times ---- 962424 pairs aligned concordantly 0 times; of these: 138728 (14.41%) aligned discordantly 1 time ---- 823696 pairs aligned 0 times concordantly or discordantly; of these: 1647392 mates make up the pairs; of these: 1362124 (82.68%) aligned 0 times 218112 (13.24%) aligned exactly 1 time 67156 (4.08%) aligned >1 times 92.39% overall alignment rate Time searching: 00:08:02 Overall time: 00:08:02 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] 86521 / 8102665 = 0.0107 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 00:35:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.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 00:35:18: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:35:18: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:35:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.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 00:35:19: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:35:19: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:35:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.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 00:35:20: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:35:20: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:35:26: 1000000 INFO @ Sat, 06 Jul 2019 00:35:27: 1000000 INFO @ Sat, 06 Jul 2019 00:35:28: 1000000 INFO @ Sat, 06 Jul 2019 00:35:33: 2000000 INFO @ Sat, 06 Jul 2019 00:35:35: 2000000 INFO @ Sat, 06 Jul 2019 00:35:36: 2000000 INFO @ Sat, 06 Jul 2019 00:35:40: 3000000 INFO @ Sat, 06 Jul 2019 00:35:43: 3000000 INFO @ Sat, 06 Jul 2019 00:35:44: 3000000 INFO @ Sat, 06 Jul 2019 00:35:47: 4000000 INFO @ Sat, 06 Jul 2019 00:35:52: 4000000 INFO @ Sat, 06 Jul 2019 00:35:52: 4000000 INFO @ Sat, 06 Jul 2019 00:35:54: 5000000 INFO @ Sat, 06 Jul 2019 00:36:00: 5000000 INFO @ Sat, 06 Jul 2019 00:36:01: 5000000 INFO @ Sat, 06 Jul 2019 00:36:01: 6000000 INFO @ Sat, 06 Jul 2019 00:36:07: 6000000 INFO @ Sat, 06 Jul 2019 00:36:08: 7000000 INFO @ Sat, 06 Jul 2019 00:36:10: 6000000 INFO @ Sat, 06 Jul 2019 00:36:15: 7000000 INFO @ Sat, 06 Jul 2019 00:36:15: 8000000 INFO @ Sat, 06 Jul 2019 00:36:19: 7000000 INFO @ Sat, 06 Jul 2019 00:36:22: 9000000 INFO @ Sat, 06 Jul 2019 00:36:23: 8000000 INFO @ Sat, 06 Jul 2019 00:36:28: 8000000 INFO @ Sat, 06 Jul 2019 00:36:29: 10000000 INFO @ Sat, 06 Jul 2019 00:36:31: 9000000 INFO @ Sat, 06 Jul 2019 00:36:37: 11000000 INFO @ Sat, 06 Jul 2019 00:36:37: 9000000 INFO @ Sat, 06 Jul 2019 00:36:38: 10000000 INFO @ Sat, 06 Jul 2019 00:36:44: 12000000 INFO @ Sat, 06 Jul 2019 00:36:46: 11000000 INFO @ Sat, 06 Jul 2019 00:36:46: 10000000 INFO @ Sat, 06 Jul 2019 00:36:51: 13000000 INFO @ Sat, 06 Jul 2019 00:36:54: 12000000 INFO @ Sat, 06 Jul 2019 00:36:56: 11000000 INFO @ Sat, 06 Jul 2019 00:36:58: 14000000 INFO @ Sat, 06 Jul 2019 00:37:02: 13000000 INFO @ Sat, 06 Jul 2019 00:37:05: 12000000 INFO @ Sat, 06 Jul 2019 00:37:05: 15000000 INFO @ Sat, 06 Jul 2019 00:37:09: 14000000 INFO @ Sat, 06 Jul 2019 00:37:12: 16000000 INFO @ Sat, 06 Jul 2019 00:37:14: 13000000 INFO @ Sat, 06 Jul 2019 00:37:15: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:37:15: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:37:15: #1 total tags in treatment: 7906133 INFO @ Sat, 06 Jul 2019 00:37:15: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:37:15: #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 00:37:15: #1 tags after filtering in treatment: 5953291 INFO @ Sat, 06 Jul 2019 00:37:15: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 06 Jul 2019 00:37:15: #1 finished! INFO @ Sat, 06 Jul 2019 00:37:15: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:37:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:37:15: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:37:15: 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 @ Sat, 06 Jul 2019 00:37:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.05_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/SRX386910/SRX386910.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:37:17: 15000000 INFO @ Sat, 06 Jul 2019 00:37:23: 14000000 INFO @ Sat, 06 Jul 2019 00:37:25: 16000000 INFO @ Sat, 06 Jul 2019 00:37:28: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:37:28: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:37:28: #1 total tags in treatment: 7906133 INFO @ Sat, 06 Jul 2019 00:37:28: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:37:28: #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 00:37:28: #1 tags after filtering in treatment: 5953291 INFO @ Sat, 06 Jul 2019 00:37:28: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 06 Jul 2019 00:37:28: #1 finished! INFO @ Sat, 06 Jul 2019 00:37:28: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:37:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:37:28: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:37:28: 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 00:37:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.20_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/SRX386910/SRX386910.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:37:32: 15000000 INFO @ Sat, 06 Jul 2019 00:37:40: 16000000 INFO @ Sat, 06 Jul 2019 00:37:43: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:37:43: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:37:43: #1 total tags in treatment: 7906133 INFO @ Sat, 06 Jul 2019 00:37:43: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:37:43: #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 00:37:43: #1 tags after filtering in treatment: 5953291 INFO @ Sat, 06 Jul 2019 00:37:43: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 06 Jul 2019 00:37:43: #1 finished! INFO @ Sat, 06 Jul 2019 00:37:43: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:37:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:37:44: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:37:44: 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 00:37:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.10_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/SRX386910/SRX386910.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386910/SRX386910.10_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。