Job ID = 2010717 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 8,917,893 reads read : 17,835,786 reads written : 17,835,786 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: 00:08:26 8917893 reads; of these: 8917893 (100.00%) were paired; of these: 1484146 (16.64%) aligned concordantly 0 times 6546368 (73.41%) aligned concordantly exactly 1 time 887379 (9.95%) aligned concordantly >1 times ---- 1484146 pairs aligned concordantly 0 times; of these: 90469 (6.10%) aligned discordantly 1 time ---- 1393677 pairs aligned 0 times concordantly or discordantly; of these: 2787354 mates make up the pairs; of these: 2410560 (86.48%) aligned 0 times 284289 (10.20%) aligned exactly 1 time 92505 (3.32%) aligned >1 times 86.48% overall alignment rate Time searching: 00:08:26 Overall time: 00:08:26 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] 93994 / 7504801 = 0.0125 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 00:31:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.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 00:31:05: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:31:05: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:31:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.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 00:31:06: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:31:06: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:31:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.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 00:31:15: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:31:15: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:31:17: 1000000 INFO @ Sat, 06 Jul 2019 00:31:19: 1000000 INFO @ Sat, 06 Jul 2019 00:31:28: 1000000 INFO @ Sat, 06 Jul 2019 00:31:29: 2000000 INFO @ Sat, 06 Jul 2019 00:31:32: 2000000 INFO @ Sat, 06 Jul 2019 00:31:41: 2000000 INFO @ Sat, 06 Jul 2019 00:31:41: 3000000 INFO @ Sat, 06 Jul 2019 00:31:45: 3000000 INFO @ Sat, 06 Jul 2019 00:31:53: 4000000 INFO @ Sat, 06 Jul 2019 00:31:54: 3000000 INFO @ Sat, 06 Jul 2019 00:31:58: 4000000 INFO @ Sat, 06 Jul 2019 00:32:05: 5000000 INFO @ Sat, 06 Jul 2019 00:32:07: 4000000 INFO @ Sat, 06 Jul 2019 00:32:11: 5000000 INFO @ Sat, 06 Jul 2019 00:32:17: 6000000 INFO @ Sat, 06 Jul 2019 00:32:20: 5000000 INFO @ Sat, 06 Jul 2019 00:32:23: 6000000 INFO @ Sat, 06 Jul 2019 00:32:29: 7000000 INFO @ Sat, 06 Jul 2019 00:32:33: 6000000 INFO @ Sat, 06 Jul 2019 00:32:36: 7000000 INFO @ Sat, 06 Jul 2019 00:32:41: 8000000 INFO @ Sat, 06 Jul 2019 00:32:45: 7000000 INFO @ Sat, 06 Jul 2019 00:32:49: 8000000 INFO @ Sat, 06 Jul 2019 00:32:53: 9000000 INFO @ Sat, 06 Jul 2019 00:32:58: 8000000 INFO @ Sat, 06 Jul 2019 00:33:01: 9000000 INFO @ Sat, 06 Jul 2019 00:33:05: 10000000 INFO @ Sat, 06 Jul 2019 00:33:11: 9000000 INFO @ Sat, 06 Jul 2019 00:33:14: 10000000 INFO @ Sat, 06 Jul 2019 00:33:17: 11000000 INFO @ Sat, 06 Jul 2019 00:33:24: 10000000 INFO @ Sat, 06 Jul 2019 00:33:27: 11000000 INFO @ Sat, 06 Jul 2019 00:33:29: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 00:33:37: 11000000 INFO @ Sat, 06 Jul 2019 00:33:40: 12000000 INFO @ Sat, 06 Jul 2019 00:33:41: 13000000 INFO @ Sat, 06 Jul 2019 00:33:49: 12000000 INFO @ Sat, 06 Jul 2019 00:33:52: 13000000 INFO @ Sat, 06 Jul 2019 00:33:53: 14000000 INFO @ Sat, 06 Jul 2019 00:34:02: 13000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 00:34:05: 15000000 INFO @ Sat, 06 Jul 2019 00:34:05: 14000000 INFO @ Sat, 06 Jul 2019 00:34:08: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:34:08: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:34:08: #1 total tags in treatment: 7340283 INFO @ Sat, 06 Jul 2019 00:34:08: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:34:08: #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 00:34:08: #1 tags after filtering in treatment: 5862312 INFO @ Sat, 06 Jul 2019 00:34:08: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 06 Jul 2019 00:34:08: #1 finished! INFO @ Sat, 06 Jul 2019 00:34:08: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:34:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:34:08: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:34:08: 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 00:34:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.05_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/SRX386900/SRX386900.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:34:15: 14000000 INFO @ Sat, 06 Jul 2019 00:34:18: 15000000 INFO @ Sat, 06 Jul 2019 00:34:21: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:34:21: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:34:21: #1 total tags in treatment: 7340283 INFO @ Sat, 06 Jul 2019 00:34:21: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:34:21: #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 00:34:21: #1 tags after filtering in treatment: 5862312 INFO @ Sat, 06 Jul 2019 00:34:21: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 06 Jul 2019 00:34:21: #1 finished! INFO @ Sat, 06 Jul 2019 00:34:21: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:34:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:34:21: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:34:21: 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 00:34:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.10_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/SRX386900/SRX386900.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:34:27: 15000000 INFO @ Sat, 06 Jul 2019 00:34:30: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:34:30: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:34:30: #1 total tags in treatment: 7340283 INFO @ Sat, 06 Jul 2019 00:34:30: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:34:30: #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 00:34:30: #1 tags after filtering in treatment: 5862312 INFO @ Sat, 06 Jul 2019 00:34:30: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 06 Jul 2019 00:34:30: #1 finished! INFO @ Sat, 06 Jul 2019 00:34:30: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:34:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:34:31: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:34:31: 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 00:34:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.20_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/SRX386900/SRX386900.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386900/SRX386900.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling