Job ID = 2010716 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 10,505,752 reads read : 21,011,504 reads written : 21,011,504 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: 00:10:07 10505752 reads; of these: 10505752 (100.00%) were paired; of these: 1749683 (16.65%) aligned concordantly 0 times 7532203 (71.70%) aligned concordantly exactly 1 time 1223866 (11.65%) aligned concordantly >1 times ---- 1749683 pairs aligned concordantly 0 times; of these: 121093 (6.92%) aligned discordantly 1 time ---- 1628590 pairs aligned 0 times concordantly or discordantly; of these: 3257180 mates make up the pairs; of these: 2808392 (86.22%) aligned 0 times 327618 (10.06%) aligned exactly 1 time 121170 (3.72%) aligned >1 times 86.63% overall alignment rate Time searching: 00:10:07 Overall time: 00:10:07 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] 188505 / 8851257 = 0.0213 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 00:37:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.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 00:37:23: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:37:23: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:37:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.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 00:37:24: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:37:24: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:37:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.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 00:37:25: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:37:25: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:37:35: 1000000 INFO @ Sat, 06 Jul 2019 00:37:36: 1000000 INFO @ Sat, 06 Jul 2019 00:37:38: 1000000 INFO @ Sat, 06 Jul 2019 00:37:47: 2000000 INFO @ Sat, 06 Jul 2019 00:37:48: 2000000 INFO @ Sat, 06 Jul 2019 00:37:52: 2000000 INFO @ Sat, 06 Jul 2019 00:37:58: 3000000 INFO @ Sat, 06 Jul 2019 00:38:00: 3000000 INFO @ Sat, 06 Jul 2019 00:38:06: 3000000 INFO @ Sat, 06 Jul 2019 00:38:10: 4000000 INFO @ Sat, 06 Jul 2019 00:38:11: 4000000 INFO @ Sat, 06 Jul 2019 00:38:19: 4000000 INFO @ Sat, 06 Jul 2019 00:38:21: 5000000 INFO @ Sat, 06 Jul 2019 00:38:22: 5000000 INFO @ Sat, 06 Jul 2019 00:38:32: 6000000 INFO @ Sat, 06 Jul 2019 00:38:32: 6000000 INFO @ Sat, 06 Jul 2019 00:38:33: 5000000 INFO @ Sat, 06 Jul 2019 00:38:41: 7000000 INFO @ Sat, 06 Jul 2019 00:38:42: 7000000 INFO @ Sat, 06 Jul 2019 00:38:46: 6000000 INFO @ Sat, 06 Jul 2019 00:38:50: 8000000 INFO @ Sat, 06 Jul 2019 00:38:53: 8000000 INFO @ Sat, 06 Jul 2019 00:38:59: 9000000 INFO @ Sat, 06 Jul 2019 00:39:00: 7000000 INFO @ Sat, 06 Jul 2019 00:39:04: 9000000 INFO @ Sat, 06 Jul 2019 00:39:09: 10000000 INFO @ Sat, 06 Jul 2019 00:39:14: 8000000 INFO @ Sat, 06 Jul 2019 00:39:15: 10000000 INFO @ Sat, 06 Jul 2019 00:39:18: 11000000 INFO @ Sat, 06 Jul 2019 00:39:25: 11000000 INFO @ Sat, 06 Jul 2019 00:39:27: 12000000 INFO @ Sat, 06 Jul 2019 00:39:27: 9000000 INFO @ Sat, 06 Jul 2019 00:39:36: 13000000 INFO @ Sat, 06 Jul 2019 00:39:36: 12000000 INFO @ Sat, 06 Jul 2019 00:39:41: 10000000 INFO @ Sat, 06 Jul 2019 00:39:45: 14000000 INFO @ Sat, 06 Jul 2019 00:39:47: 13000000 INFO @ Sat, 06 Jul 2019 00:39:54: 11000000 INFO @ Sat, 06 Jul 2019 00:39:55: 15000000 INFO @ Sat, 06 Jul 2019 00:39:57: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 00:40:04: 16000000 INFO @ Sat, 06 Jul 2019 00:40:07: 12000000 INFO @ Sat, 06 Jul 2019 00:40:08: 15000000 INFO @ Sat, 06 Jul 2019 00:40:13: 17000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 00:40:19: 16000000 INFO @ Sat, 06 Jul 2019 00:40:20: 13000000 INFO @ Sat, 06 Jul 2019 00:40:21: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:40:21: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:40:21: #1 total tags in treatment: 8568389 INFO @ Sat, 06 Jul 2019 00:40:21: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:40:21: #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 00:40:21: #1 tags after filtering in treatment: 6577483 INFO @ Sat, 06 Jul 2019 00:40:21: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 00:40:21: #1 finished! INFO @ Sat, 06 Jul 2019 00:40:21: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:40:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:40:22: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:40:22: 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 00:40:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.20_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/SRX386899/SRX386899.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:40:30: 17000000 INFO @ Sat, 06 Jul 2019 00:40:33: 14000000 INFO @ Sat, 06 Jul 2019 00:40:38: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:40:38: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:40:38: #1 total tags in treatment: 8568389 INFO @ Sat, 06 Jul 2019 00:40:38: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:40:38: #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 00:40:39: #1 tags after filtering in treatment: 6577483 INFO @ Sat, 06 Jul 2019 00:40:39: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 00:40:39: #1 finished! INFO @ Sat, 06 Jul 2019 00:40:39: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:40:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:40:39: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:40:39: 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 00:40:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.05_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/SRX386899/SRX386899.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:40:45: 15000000 INFO @ Sat, 06 Jul 2019 00:40:57: 16000000 INFO @ Sat, 06 Jul 2019 00:41:09: 17000000 INFO @ Sat, 06 Jul 2019 00:41:18: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:41:18: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:41:18: #1 total tags in treatment: 8568389 INFO @ Sat, 06 Jul 2019 00:41:18: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:41:18: #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 00:41:19: #1 tags after filtering in treatment: 6577483 INFO @ Sat, 06 Jul 2019 00:41:19: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 00:41:19: #1 finished! INFO @ Sat, 06 Jul 2019 00:41:19: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:41:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:41:19: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:41:19: 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 00:41:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.10_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/SRX386899/SRX386899.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386899/SRX386899.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling