Job ID = 2011656 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 30,066,577 reads read : 60,133,154 reads written : 60,133,154 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1146724.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: 00:21:47 30066577 reads; of these: 30066577 (100.00%) were paired; of these: 4650741 (15.47%) aligned concordantly 0 times 21621590 (71.91%) aligned concordantly exactly 1 time 3794246 (12.62%) aligned concordantly >1 times ---- 4650741 pairs aligned concordantly 0 times; of these: 473877 (10.19%) aligned discordantly 1 time ---- 4176864 pairs aligned 0 times concordantly or discordantly; of these: 8353728 mates make up the pairs; of these: 7934560 (94.98%) aligned 0 times 183565 (2.20%) aligned exactly 1 time 235603 (2.82%) aligned >1 times 86.81% overall alignment rate Time searching: 00:21:47 Overall time: 00:21:47 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 24 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] 9828612 / 25784448 = 0.3812 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 02:32:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.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 02:32:40: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:32:40: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:32:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.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 02:32:41: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:32:41: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:32:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.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 02:32:44: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:32:44: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:32:49: 1000000 INFO @ Sat, 06 Jul 2019 02:32:50: 1000000 INFO @ Sat, 06 Jul 2019 02:32:55: 1000000 INFO @ Sat, 06 Jul 2019 02:32:58: 2000000 INFO @ Sat, 06 Jul 2019 02:32:59: 2000000 INFO @ Sat, 06 Jul 2019 02:33:05: 2000000 INFO @ Sat, 06 Jul 2019 02:33:06: 3000000 INFO @ Sat, 06 Jul 2019 02:33:08: 3000000 INFO @ Sat, 06 Jul 2019 02:33:15: 4000000 INFO @ Sat, 06 Jul 2019 02:33:16: 3000000 INFO @ Sat, 06 Jul 2019 02:33:17: 4000000 INFO @ Sat, 06 Jul 2019 02:33:24: 5000000 INFO @ Sat, 06 Jul 2019 02:33:25: 5000000 INFO @ Sat, 06 Jul 2019 02:33:27: 4000000 INFO @ Sat, 06 Jul 2019 02:33:33: 6000000 INFO @ Sat, 06 Jul 2019 02:33:34: 6000000 INFO @ Sat, 06 Jul 2019 02:33:37: 5000000 INFO @ Sat, 06 Jul 2019 02:33:42: 7000000 INFO @ Sat, 06 Jul 2019 02:33:43: 7000000 INFO @ Sat, 06 Jul 2019 02:33:47: 6000000 INFO @ Sat, 06 Jul 2019 02:33:50: 8000000 INFO @ Sat, 06 Jul 2019 02:33:52: 8000000 INFO @ Sat, 06 Jul 2019 02:33:58: 7000000 INFO @ Sat, 06 Jul 2019 02:33:59: 9000000 INFO @ Sat, 06 Jul 2019 02:34:00: 9000000 INFO @ Sat, 06 Jul 2019 02:34:08: 10000000 INFO @ Sat, 06 Jul 2019 02:34:08: 8000000 INFO @ Sat, 06 Jul 2019 02:34:09: 10000000 INFO @ Sat, 06 Jul 2019 02:34:16: 11000000 INFO @ Sat, 06 Jul 2019 02:34:17: 11000000 INFO @ Sat, 06 Jul 2019 02:34:18: 9000000 INFO @ Sat, 06 Jul 2019 02:34:25: 12000000 INFO @ Sat, 06 Jul 2019 02:34:26: 12000000 INFO @ Sat, 06 Jul 2019 02:34:28: 10000000 INFO @ Sat, 06 Jul 2019 02:34:34: 13000000 INFO @ Sat, 06 Jul 2019 02:34:35: 13000000 INFO @ Sat, 06 Jul 2019 02:34:38: 11000000 INFO @ Sat, 06 Jul 2019 02:34:42: 14000000 INFO @ Sat, 06 Jul 2019 02:34:42: 14000000 INFO @ Sat, 06 Jul 2019 02:34:48: 12000000 INFO @ Sat, 06 Jul 2019 02:34:49: 15000000 INFO @ Sat, 06 Jul 2019 02:34:50: 15000000 INFO @ Sat, 06 Jul 2019 02:34:56: 16000000 INFO @ Sat, 06 Jul 2019 02:34:57: 16000000 INFO @ Sat, 06 Jul 2019 02:34:57: 13000000 INFO @ Sat, 06 Jul 2019 02:35:04: 17000000 INFO @ Sat, 06 Jul 2019 02:35:04: 17000000 INFO @ Sat, 06 Jul 2019 02:35:07: 14000000 INFO @ Sat, 06 Jul 2019 02:35:11: 18000000 INFO @ Sat, 06 Jul 2019 02:35:11: 18000000 INFO @ Sat, 06 Jul 2019 02:35:17: 15000000 INFO @ Sat, 06 Jul 2019 02:35:18: 19000000 INFO @ Sat, 06 Jul 2019 02:35:19: 19000000 INFO @ Sat, 06 Jul 2019 02:35:25: 20000000 INFO @ Sat, 06 Jul 2019 02:35:26: 20000000 INFO @ Sat, 06 Jul 2019 02:35:26: 16000000 INFO @ Sat, 06 Jul 2019 02:35:32: 21000000 INFO @ Sat, 06 Jul 2019 02:35:33: 21000000 INFO @ Sat, 06 Jul 2019 02:35:36: 17000000 INFO @ Sat, 06 Jul 2019 02:35:39: 22000000 INFO @ Sat, 06 Jul 2019 02:35:40: 22000000 INFO @ Sat, 06 Jul 2019 02:35:46: 18000000 INFO @ Sat, 06 Jul 2019 02:35:47: 23000000 INFO @ Sat, 06 Jul 2019 02:35:47: 23000000 INFO @ Sat, 06 Jul 2019 02:35:55: 24000000 INFO @ Sat, 06 Jul 2019 02:35:55: 19000000 INFO @ Sat, 06 Jul 2019 02:35:55: 24000000 INFO @ Sat, 06 Jul 2019 02:36:03: 25000000 INFO @ Sat, 06 Jul 2019 02:36:04: 25000000 INFO @ Sat, 06 Jul 2019 02:36:05: 20000000 INFO @ Sat, 06 Jul 2019 02:36:10: 26000000 INFO @ Sat, 06 Jul 2019 02:36:14: 26000000 INFO @ Sat, 06 Jul 2019 02:36:15: 21000000 INFO @ Sat, 06 Jul 2019 02:36:17: 27000000 INFO @ Sat, 06 Jul 2019 02:36:23: 27000000 INFO @ Sat, 06 Jul 2019 02:36:24: 22000000 INFO @ Sat, 06 Jul 2019 02:36:24: 28000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 02:36:31: 29000000 INFO @ Sat, 06 Jul 2019 02:36:33: 28000000 INFO @ Sat, 06 Jul 2019 02:36:34: 23000000 INFO @ Sat, 06 Jul 2019 02:36:38: 30000000 INFO @ Sat, 06 Jul 2019 02:36:43: 29000000 INFO @ Sat, 06 Jul 2019 02:36:43: 24000000 INFO @ Sat, 06 Jul 2019 02:36:45: 31000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 02:36:52: 25000000 INFO @ Sat, 06 Jul 2019 02:36:52: 32000000 INFO @ Sat, 06 Jul 2019 02:36:53: 30000000 INFO @ Sat, 06 Jul 2019 02:36:56: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:36:56: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:36:56: #1 total tags in treatment: 15713040 INFO @ Sat, 06 Jul 2019 02:36:56: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:36:56: #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 02:36:57: #1 tags after filtering in treatment: 10457934 INFO @ Sat, 06 Jul 2019 02:36:57: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 06 Jul 2019 02:36:57: #1 finished! INFO @ Sat, 06 Jul 2019 02:36:57: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:36:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:36:58: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:36:58: 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 02:36:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.05_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/SRX455434/SRX455434.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:37:02: 26000000 INFO @ Sat, 06 Jul 2019 02:37:02: 31000000 INFO @ Sat, 06 Jul 2019 02:37:11: 27000000 INFO @ Sat, 06 Jul 2019 02:37:11: 32000000 INFO @ Sat, 06 Jul 2019 02:37:17: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:37:17: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:37:17: #1 total tags in treatment: 15713040 INFO @ Sat, 06 Jul 2019 02:37:17: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:37:17: #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 02:37:17: #1 tags after filtering in treatment: 10457934 INFO @ Sat, 06 Jul 2019 02:37:17: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 06 Jul 2019 02:37:17: #1 finished! INFO @ Sat, 06 Jul 2019 02:37:17: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:37:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:37:18: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:37:18: 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 02:37:18: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 02:37:21: 28000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.10_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/SRX455434/SRX455434.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:37:30: 29000000 INFO @ Sat, 06 Jul 2019 02:37:39: 30000000 INFO @ Sat, 06 Jul 2019 02:37:48: 31000000 INFO @ Sat, 06 Jul 2019 02:37:57: 32000000 INFO @ Sat, 06 Jul 2019 02:38:02: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:38:02: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:38:02: #1 total tags in treatment: 15713040 INFO @ Sat, 06 Jul 2019 02:38:02: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:38:02: #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 02:38:02: #1 tags after filtering in treatment: 10457934 INFO @ Sat, 06 Jul 2019 02:38:02: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 06 Jul 2019 02:38:02: #1 finished! INFO @ Sat, 06 Jul 2019 02:38:02: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:38:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:38:03: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:38:03: 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 02:38:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.20_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/SRX455434/SRX455434.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455434/SRX455434.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling