Job ID = 2008320 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 32,964,078 reads read : 65,928,156 reads written : 65,928,156 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629000.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: 00:36:50 32964078 reads; of these: 32964078 (100.00%) were paired; of these: 1613053 (4.89%) aligned concordantly 0 times 29646848 (89.94%) aligned concordantly exactly 1 time 1704177 (5.17%) aligned concordantly >1 times ---- 1613053 pairs aligned concordantly 0 times; of these: 490046 (30.38%) aligned discordantly 1 time ---- 1123007 pairs aligned 0 times concordantly or discordantly; of these: 2246014 mates make up the pairs; of these: 2022020 (90.03%) aligned 0 times 158345 (7.05%) aligned exactly 1 time 65649 (2.92%) aligned >1 times 96.93% overall alignment rate Time searching: 00:36:50 Overall time: 00:36:50 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 28 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] 13906129 / 31730384 = 0.4383 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 19:57:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.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 19:57:56: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:57:56: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:57:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.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 19:57:57: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:57:57: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:57:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.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 19:57:58: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:57:58: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:58:05: 1000000 INFO @ Fri, 05 Jul 2019 19:58:06: 1000000 INFO @ Fri, 05 Jul 2019 19:58:07: 1000000 INFO @ Fri, 05 Jul 2019 19:58:12: 2000000 INFO @ Fri, 05 Jul 2019 19:58:15: 2000000 INFO @ Fri, 05 Jul 2019 19:58:15: 2000000 INFO @ Fri, 05 Jul 2019 19:58:20: 3000000 INFO @ Fri, 05 Jul 2019 19:58:23: 3000000 INFO @ Fri, 05 Jul 2019 19:58:24: 3000000 INFO @ Fri, 05 Jul 2019 19:58:27: 4000000 INFO @ Fri, 05 Jul 2019 19:58:31: 4000000 INFO @ Fri, 05 Jul 2019 19:58:33: 4000000 INFO @ Fri, 05 Jul 2019 19:58:34: 5000000 INFO @ Fri, 05 Jul 2019 19:58:39: 5000000 INFO @ Fri, 05 Jul 2019 19:58:41: 6000000 INFO @ Fri, 05 Jul 2019 19:58:42: 5000000 INFO @ Fri, 05 Jul 2019 19:58:47: 6000000 INFO @ Fri, 05 Jul 2019 19:58:50: 7000000 INFO @ Fri, 05 Jul 2019 19:58:52: 6000000 INFO @ Fri, 05 Jul 2019 19:58:55: 7000000 INFO @ Fri, 05 Jul 2019 19:58:58: 8000000 INFO @ Fri, 05 Jul 2019 19:59:00: 7000000 INFO @ Fri, 05 Jul 2019 19:59:03: 8000000 INFO @ Fri, 05 Jul 2019 19:59:05: 9000000 INFO @ Fri, 05 Jul 2019 19:59:08: 8000000 INFO @ Fri, 05 Jul 2019 19:59:11: 9000000 INFO @ Fri, 05 Jul 2019 19:59:12: 10000000 INFO @ Fri, 05 Jul 2019 19:59:17: 9000000 INFO @ Fri, 05 Jul 2019 19:59:19: 10000000 INFO @ Fri, 05 Jul 2019 19:59:19: 11000000 INFO @ Fri, 05 Jul 2019 19:59:25: 10000000 INFO @ Fri, 05 Jul 2019 19:59:26: 12000000 INFO @ Fri, 05 Jul 2019 19:59:26: 11000000 INFO @ Fri, 05 Jul 2019 19:59:33: 13000000 INFO @ Fri, 05 Jul 2019 19:59:34: 11000000 INFO @ Fri, 05 Jul 2019 19:59:34: 12000000 INFO @ Fri, 05 Jul 2019 19:59:40: 14000000 INFO @ Fri, 05 Jul 2019 19:59:42: 13000000 INFO @ Fri, 05 Jul 2019 19:59:42: 12000000 INFO @ Fri, 05 Jul 2019 19:59:48: 15000000 INFO @ Fri, 05 Jul 2019 19:59:49: 14000000 INFO @ Fri, 05 Jul 2019 19:59:51: 13000000 INFO @ Fri, 05 Jul 2019 19:59:56: 16000000 INFO @ Fri, 05 Jul 2019 19:59:57: 15000000 INFO @ Fri, 05 Jul 2019 19:59:59: 14000000 INFO @ Fri, 05 Jul 2019 20:00:03: 17000000 INFO @ Fri, 05 Jul 2019 20:00:06: 16000000 INFO @ Fri, 05 Jul 2019 20:00:08: 15000000 INFO @ Fri, 05 Jul 2019 20:00:10: 18000000 INFO @ Fri, 05 Jul 2019 20:00:13: 17000000 INFO @ Fri, 05 Jul 2019 20:00:17: 19000000 INFO @ Fri, 05 Jul 2019 20:00:17: 16000000 INFO @ Fri, 05 Jul 2019 20:00:21: 18000000 INFO @ Fri, 05 Jul 2019 20:00:24: 20000000 INFO @ Fri, 05 Jul 2019 20:00:26: 17000000 INFO @ Fri, 05 Jul 2019 20:00:28: 19000000 INFO @ Fri, 05 Jul 2019 20:00:31: 21000000 INFO @ Fri, 05 Jul 2019 20:00:34: 18000000 INFO @ Fri, 05 Jul 2019 20:00:36: 20000000 INFO @ Fri, 05 Jul 2019 20:00:38: 22000000 INFO @ Fri, 05 Jul 2019 20:00:42: 19000000 INFO @ Fri, 05 Jul 2019 20:00:43: 21000000 INFO @ Fri, 05 Jul 2019 20:00:45: 23000000 INFO @ Fri, 05 Jul 2019 20:00:51: 22000000 INFO @ Fri, 05 Jul 2019 20:00:52: 24000000 INFO @ Fri, 05 Jul 2019 20:00:52: 20000000 INFO @ Fri, 05 Jul 2019 20:00:58: 25000000 INFO @ Fri, 05 Jul 2019 20:00:58: 23000000 INFO @ Fri, 05 Jul 2019 20:01:00: 21000000 INFO @ Fri, 05 Jul 2019 20:01:05: 26000000 INFO @ Fri, 05 Jul 2019 20:01:06: 24000000 INFO @ Fri, 05 Jul 2019 20:01:09: 22000000 INFO @ Fri, 05 Jul 2019 20:01:12: 27000000 INFO @ Fri, 05 Jul 2019 20:01:13: 25000000 INFO @ Fri, 05 Jul 2019 20:01:17: 23000000 INFO @ Fri, 05 Jul 2019 20:01:19: 28000000 INFO @ Fri, 05 Jul 2019 20:01:21: 26000000 INFO @ Fri, 05 Jul 2019 20:01:26: 29000000 INFO @ Fri, 05 Jul 2019 20:01:26: 24000000 INFO @ Fri, 05 Jul 2019 20:01:29: 27000000 INFO @ Fri, 05 Jul 2019 20:01:32: 30000000 INFO @ Fri, 05 Jul 2019 20:01:34: 25000000 INFO @ Fri, 05 Jul 2019 20:01:36: 28000000 INFO @ Fri, 05 Jul 2019 20:01:39: 31000000 INFO @ Fri, 05 Jul 2019 20:01:42: 26000000 INFO @ Fri, 05 Jul 2019 20:01:43: 29000000 INFO @ Fri, 05 Jul 2019 20:01:46: 32000000 INFO @ Fri, 05 Jul 2019 20:01:50: 30000000 INFO @ Fri, 05 Jul 2019 20:01:51: 27000000 INFO @ Fri, 05 Jul 2019 20:01:53: 33000000 INFO @ Fri, 05 Jul 2019 20:01:58: 31000000 INFO @ Fri, 05 Jul 2019 20:02:00: 34000000 INFO @ Fri, 05 Jul 2019 20:02:00: 28000000 INFO @ Fri, 05 Jul 2019 20:02:05: 32000000 INFO @ Fri, 05 Jul 2019 20:02:07: 35000000 INFO @ Fri, 05 Jul 2019 20:02:08: 29000000 INFO @ Fri, 05 Jul 2019 20:02:13: 33000000 INFO @ Fri, 05 Jul 2019 20:02:14: 36000000 INFO @ Fri, 05 Jul 2019 20:02:15: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 20:02:15: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 20:02:15: #1 total tags in treatment: 17506899 INFO @ Fri, 05 Jul 2019 20:02:15: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:02:15: #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 20:02:15: #1 tags after filtering in treatment: 6403890 INFO @ Fri, 05 Jul 2019 20:02:15: #1 Redundant rate of treatment: 0.63 INFO @ Fri, 05 Jul 2019 20:02:15: #1 finished! INFO @ Fri, 05 Jul 2019 20:02:15: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:02:15: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:02:15: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:02:15: 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 20:02:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.10_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/ERX585829/ERX585829.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:02:16: 30000000 INFO @ Fri, 05 Jul 2019 20:02:20: 34000000 INFO @ Fri, 05 Jul 2019 20:02:25: 31000000 INFO @ Fri, 05 Jul 2019 20:02:27: 35000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 20:02:33: 32000000 INFO @ Fri, 05 Jul 2019 20:02:35: 36000000 INFO @ Fri, 05 Jul 2019 20:02:36: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 20:02:36: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 20:02:36: #1 total tags in treatment: 17506899 INFO @ Fri, 05 Jul 2019 20:02:36: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:02:36: #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 20:02:36: #1 tags after filtering in treatment: 6403890 INFO @ Fri, 05 Jul 2019 20:02:36: #1 Redundant rate of treatment: 0.63 INFO @ Fri, 05 Jul 2019 20:02:36: #1 finished! INFO @ Fri, 05 Jul 2019 20:02:36: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:02:36: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:02:37: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:02:37: 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 20:02:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.20_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/ERX585829/ERX585829.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:02:42: 33000000 INFO @ Fri, 05 Jul 2019 20:02:50: 34000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 20:02:59: 35000000 INFO @ Fri, 05 Jul 2019 20:03:07: 36000000 INFO @ Fri, 05 Jul 2019 20:03:08: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 20:03:08: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 20:03:08: #1 total tags in treatment: 17506899 INFO @ Fri, 05 Jul 2019 20:03:08: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:03:08: #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 20:03:09: #1 tags after filtering in treatment: 6403890 INFO @ Fri, 05 Jul 2019 20:03:09: #1 Redundant rate of treatment: 0.63 INFO @ Fri, 05 Jul 2019 20:03:09: #1 finished! INFO @ Fri, 05 Jul 2019 20:03:09: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:03:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:03:09: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:03:09: 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 20:03:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.05_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/ERX585829/ERX585829.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585829/ERX585829.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling