Job ID = 2009849 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 16,000,000 reads read : 32,000,000 reads written : 32,000,000 spots read : 3,557,404 reads read : 7,114,808 reads written : 7,114,808 rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR583973.sra.cache’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR583974.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: 00:29:16 19557404 reads; of these: 19557404 (100.00%) were paired; of these: 6554538 (33.51%) aligned concordantly 0 times 12114579 (61.94%) aligned concordantly exactly 1 time 888287 (4.54%) aligned concordantly >1 times ---- 6554538 pairs aligned concordantly 0 times; of these: 2856848 (43.59%) aligned discordantly 1 time ---- 3697690 pairs aligned 0 times concordantly or discordantly; of these: 7395380 mates make up the pairs; of these: 5171753 (69.93%) aligned 0 times 1755191 (23.73%) aligned exactly 1 time 468436 (6.33%) aligned >1 times 86.78% overall alignment rate Time searching: 00:29:16 Overall time: 00:29:16 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] 3863425 / 15528238 = 0.2488 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Fri, 05 Jul 2019 21:02:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.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 BedGraph に変換中... INFO @ Fri, 05 Jul 2019 21:02:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.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 21:02:57: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:02:57: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:02:57: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:02:57: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:02:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.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 21:02:57: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:02:57: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:03:07: 1000000 INFO @ Fri, 05 Jul 2019 21:03:08: 1000000 INFO @ Fri, 05 Jul 2019 21:03:09: 1000000 INFO @ Fri, 05 Jul 2019 21:03:17: 2000000 INFO @ Fri, 05 Jul 2019 21:03:20: 2000000 INFO @ Fri, 05 Jul 2019 21:03:21: 2000000 INFO @ Fri, 05 Jul 2019 21:03:27: 3000000 INFO @ Fri, 05 Jul 2019 21:03:31: 3000000 INFO @ Fri, 05 Jul 2019 21:03:31: 3000000 INFO @ Fri, 05 Jul 2019 21:03:37: 4000000 INFO @ Fri, 05 Jul 2019 21:03:41: 4000000 INFO @ Fri, 05 Jul 2019 21:03:42: 4000000 INFO @ Fri, 05 Jul 2019 21:03:47: 5000000 INFO @ Fri, 05 Jul 2019 21:03:53: 5000000 INFO @ Fri, 05 Jul 2019 21:03:54: 5000000 INFO @ Fri, 05 Jul 2019 21:03:56: 6000000 INFO @ Fri, 05 Jul 2019 21:04:04: 6000000 INFO @ Fri, 05 Jul 2019 21:04:06: 7000000 INFO @ Fri, 05 Jul 2019 21:04:08: 6000000 INFO @ Fri, 05 Jul 2019 21:04:16: 8000000 INFO @ Fri, 05 Jul 2019 21:04:18: 7000000 INFO @ Fri, 05 Jul 2019 21:04:19: 7000000 INFO @ Fri, 05 Jul 2019 21:04:26: 9000000 INFO @ Fri, 05 Jul 2019 21:04:30: 8000000 INFO @ Fri, 05 Jul 2019 21:04:31: 8000000 INFO @ Fri, 05 Jul 2019 21:04:36: 10000000 INFO @ Fri, 05 Jul 2019 21:04:41: 9000000 INFO @ Fri, 05 Jul 2019 21:04:43: 9000000 INFO @ Fri, 05 Jul 2019 21:04:46: 11000000 INFO @ Fri, 05 Jul 2019 21:04:53: 10000000 INFO @ Fri, 05 Jul 2019 21:04:55: 10000000 INFO @ Fri, 05 Jul 2019 21:04:56: 12000000 INFO @ Fri, 05 Jul 2019 21:05:05: 11000000 INFO @ Fri, 05 Jul 2019 21:05:06: 13000000 INFO @ Fri, 05 Jul 2019 21:05:07: 11000000 INFO @ Fri, 05 Jul 2019 21:05:16: 14000000 INFO @ Fri, 05 Jul 2019 21:05:16: 12000000 INFO @ Fri, 05 Jul 2019 21:05:18: 12000000 INFO @ Fri, 05 Jul 2019 21:05:25: 15000000 INFO @ Fri, 05 Jul 2019 21:05:28: 13000000 INFO @ Fri, 05 Jul 2019 21:05:30: 13000000 INFO @ Fri, 05 Jul 2019 21:05:35: 16000000 INFO @ Fri, 05 Jul 2019 21:05:39: 14000000 INFO @ Fri, 05 Jul 2019 21:05:42: 14000000 INFO @ Fri, 05 Jul 2019 21:05:44: 17000000 INFO @ Fri, 05 Jul 2019 21:05:51: 15000000 INFO @ Fri, 05 Jul 2019 21:05:53: 18000000 INFO @ Fri, 05 Jul 2019 21:05:53: 15000000 INFO @ Fri, 05 Jul 2019 21:06:02: 16000000 INFO @ Fri, 05 Jul 2019 21:06:03: 19000000 INFO @ Fri, 05 Jul 2019 21:06:05: 16000000 INFO @ Fri, 05 Jul 2019 21:06:12: 20000000 INFO @ Fri, 05 Jul 2019 21:06:13: 17000000 INFO @ Fri, 05 Jul 2019 21:06:17: 17000000 INFO @ Fri, 05 Jul 2019 21:06:21: 21000000 INFO @ Fri, 05 Jul 2019 21:06:26: 18000000 INFO @ Fri, 05 Jul 2019 21:06:28: 18000000 INFO @ Fri, 05 Jul 2019 21:06:30: 22000000 INFO @ Fri, 05 Jul 2019 21:06:37: 19000000 INFO @ Fri, 05 Jul 2019 21:06:38: 19000000 INFO @ Fri, 05 Jul 2019 21:06:40: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 21:06:48: 20000000 INFO @ Fri, 05 Jul 2019 21:06:49: 24000000 INFO @ Fri, 05 Jul 2019 21:06:49: 20000000 INFO @ Fri, 05 Jul 2019 21:06:58: 21000000 INFO @ Fri, 05 Jul 2019 21:06:59: 25000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 21:07:00: 21000000 INFO @ Fri, 05 Jul 2019 21:07:08: 26000000 INFO @ Fri, 05 Jul 2019 21:07:09: 22000000 INFO @ Fri, 05 Jul 2019 21:07:10: #1 tag size is determined as 101 bps INFO @ Fri, 05 Jul 2019 21:07:10: #1 tag size = 101 INFO @ Fri, 05 Jul 2019 21:07:10: #1 total tags in treatment: 9718134 INFO @ Fri, 05 Jul 2019 21:07:10: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:07:10: #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 21:07:10: #1 tags after filtering in treatment: 4272174 INFO @ Fri, 05 Jul 2019 21:07:10: #1 Redundant rate of treatment: 0.56 INFO @ Fri, 05 Jul 2019 21:07:10: #1 finished! INFO @ Fri, 05 Jul 2019 21:07:10: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:07:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:07:11: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:07:11: 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 21:07:11: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 21:07:11: 22000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.10_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/SRX193166/SRX193166.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:07:21: 23000000 INFO @ Fri, 05 Jul 2019 21:07:22: 23000000 INFO @ Fri, 05 Jul 2019 21:07:32: 24000000 INFO @ Fri, 05 Jul 2019 21:07:33: 24000000 INFO @ Fri, 05 Jul 2019 21:07:43: 25000000 INFO @ Fri, 05 Jul 2019 21:07:45: 25000000 INFO @ Fri, 05 Jul 2019 21:07:55: 26000000 INFO @ Fri, 05 Jul 2019 21:07:56: 26000000 INFO @ Fri, 05 Jul 2019 21:07:57: #1 tag size is determined as 101 bps INFO @ Fri, 05 Jul 2019 21:07:57: #1 tag size = 101 INFO @ Fri, 05 Jul 2019 21:07:57: #1 total tags in treatment: 9718134 INFO @ Fri, 05 Jul 2019 21:07:57: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:07:57: #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 21:07:57: #1 tags after filtering in treatment: 4272174 INFO @ Fri, 05 Jul 2019 21:07:57: #1 Redundant rate of treatment: 0.56 INFO @ Fri, 05 Jul 2019 21:07:57: #1 finished! INFO @ Fri, 05 Jul 2019 21:07:57: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:07:57: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:07:58: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:07:58: 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 @ Fri, 05 Jul 2019 21:07:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.05_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/SRX193166/SRX193166.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:07:58: #1 tag size is determined as 101 bps INFO @ Fri, 05 Jul 2019 21:07:58: #1 tag size = 101 INFO @ Fri, 05 Jul 2019 21:07:58: #1 total tags in treatment: 9718134 INFO @ Fri, 05 Jul 2019 21:07:58: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:07:58: #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 21:07:58: #1 tags after filtering in treatment: 4272174 INFO @ Fri, 05 Jul 2019 21:07:58: #1 Redundant rate of treatment: 0.56 INFO @ Fri, 05 Jul 2019 21:07:58: #1 finished! INFO @ Fri, 05 Jul 2019 21:07:58: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:07:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:07:59: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:08:00: 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 21:08:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.20_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/SRX193166/SRX193166.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193166/SRX193166.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling