Job ID = 2011852 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 17,365,183 reads read : 34,730,366 reads written : 34,730,364 reads 0-length : 2 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 Error, fewer reads in file specified with -1 than in file specified with -2 terminate called after throwing an instance of 'int' (ERR): bowtie2-align died with signal 6 (ABRT) (core dumped) 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] 5893875 / 16769425 = 0.3515 in library ' ' awk: cmd. line:1: (FILENAME=- FNR=1) fatal: division by zero attempted 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 03:36:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.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 03:36:12: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:36:12: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:36:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.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 03:36:13: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:36:13: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:36:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.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 03:36:14: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:36:14: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:36:20: 1000000 INFO @ Sat, 06 Jul 2019 03:36:22: 1000000 INFO @ Sat, 06 Jul 2019 03:36:22: 1000000 INFO @ Sat, 06 Jul 2019 03:36:28: 2000000 INFO @ Sat, 06 Jul 2019 03:36:30: 2000000 INFO @ Sat, 06 Jul 2019 03:36:32: 2000000 INFO @ Sat, 06 Jul 2019 03:36:36: 3000000 INFO @ Sat, 06 Jul 2019 03:36:39: 3000000 INFO @ Sat, 06 Jul 2019 03:36:42: 3000000 INFO @ Sat, 06 Jul 2019 03:36:45: 4000000 INFO @ Sat, 06 Jul 2019 03:36:46: 4000000 INFO @ Sat, 06 Jul 2019 03:36:52: 4000000 INFO @ Sat, 06 Jul 2019 03:36:53: 5000000 INFO @ Sat, 06 Jul 2019 03:36:54: 5000000 INFO @ Sat, 06 Jul 2019 03:37:01: 6000000 INFO @ Sat, 06 Jul 2019 03:37:02: 5000000 INFO @ Sat, 06 Jul 2019 03:37:03: 6000000 INFO @ Sat, 06 Jul 2019 03:37:09: 7000000 INFO @ Sat, 06 Jul 2019 03:37:11: 7000000 INFO @ Sat, 06 Jul 2019 03:37:12: 6000000 INFO @ Sat, 06 Jul 2019 03:37:17: 8000000 INFO @ Sat, 06 Jul 2019 03:37:19: 8000000 INFO @ Sat, 06 Jul 2019 03:37:22: 7000000 INFO @ Sat, 06 Jul 2019 03:37:25: 9000000 INFO @ Sat, 06 Jul 2019 03:37:26: 9000000 INFO @ Sat, 06 Jul 2019 03:37:31: 8000000 INFO @ Sat, 06 Jul 2019 03:37:33: 10000000 INFO @ Sat, 06 Jul 2019 03:37:34: 10000000 INFO @ Sat, 06 Jul 2019 03:37:41: 9000000 INFO @ Sat, 06 Jul 2019 03:37:41: 11000000 INFO @ Sat, 06 Jul 2019 03:37:42: 11000000 INFO @ Sat, 06 Jul 2019 03:37:49: 12000000 INFO @ Sat, 06 Jul 2019 03:37:50: 12000000 INFO @ Sat, 06 Jul 2019 03:37:50: 10000000 INFO @ Sat, 06 Jul 2019 03:37:57: 13000000 INFO @ Sat, 06 Jul 2019 03:37:57: 13000000 INFO @ Sat, 06 Jul 2019 03:38:00: 11000000 INFO @ Sat, 06 Jul 2019 03:38:04: 14000000 INFO @ Sat, 06 Jul 2019 03:38:05: 14000000 INFO @ Sat, 06 Jul 2019 03:38:09: 12000000 INFO @ Sat, 06 Jul 2019 03:38:13: 15000000 INFO @ Sat, 06 Jul 2019 03:38:13: 15000000 INFO @ Sat, 06 Jul 2019 03:38:18: 13000000 INFO @ Sat, 06 Jul 2019 03:38:21: 16000000 INFO @ Sat, 06 Jul 2019 03:38:21: 16000000 INFO @ Sat, 06 Jul 2019 03:38:27: 14000000 INFO @ Sat, 06 Jul 2019 03:38:30: 17000000 INFO @ Sat, 06 Jul 2019 03:38:30: 17000000 INFO @ Sat, 06 Jul 2019 03:38:36: 15000000 INFO @ Sat, 06 Jul 2019 03:38:39: 18000000 INFO @ Sat, 06 Jul 2019 03:38:39: 18000000 INFO @ Sat, 06 Jul 2019 03:38:46: 16000000 INFO @ Sat, 06 Jul 2019 03:38:47: 19000000 INFO @ Sat, 06 Jul 2019 03:38:48: 19000000 INFO @ Sat, 06 Jul 2019 03:38:56: 17000000 INFO @ Sat, 06 Jul 2019 03:38:56: 20000000 INFO @ Sat, 06 Jul 2019 03:38:56: 20000000 INFO @ Sat, 06 Jul 2019 03:39:03: 21000000 INFO @ Sat, 06 Jul 2019 03:39:04: 21000000 INFO @ Sat, 06 Jul 2019 03:39:05: 18000000 INFO @ Sat, 06 Jul 2019 03:39:11: 22000000 INFO @ Sat, 06 Jul 2019 03:39:12: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 03:39:12: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 03:39:12: #1 total tags in treatment: 10825109 INFO @ Sat, 06 Jul 2019 03:39:12: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:39:12: #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 03:39:12: #1 tags after filtering in treatment: 6524822 INFO @ Sat, 06 Jul 2019 03:39:12: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 06 Jul 2019 03:39:12: #1 finished! INFO @ Sat, 06 Jul 2019 03:39:12: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:39:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:39:12: 22000000 INFO @ Sat, 06 Jul 2019 03:39:12: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 03:39:12: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 03:39:12: #1 total tags in treatment: 10825109 INFO @ Sat, 06 Jul 2019 03:39:12: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:39:12: #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 03:39:13: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:39:13: 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 03:39:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 03:39:13: #1 tags after filtering in treatment: 6524822 INFO @ Sat, 06 Jul 2019 03:39:13: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 06 Jul 2019 03:39:13: #1 finished! INFO @ Sat, 06 Jul 2019 03:39:13: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:39:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:39:13: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:39:13: 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 03:39:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.05_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/SRX5126607/SRX5126607.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 03:39:15: 19000000 INFO @ Sat, 06 Jul 2019 03:39:25: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 03:39:34: 21000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 03:39:44: 22000000 INFO @ Sat, 06 Jul 2019 03:39:44: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 03:39:44: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 03:39:44: #1 total tags in treatment: 10825109 INFO @ Sat, 06 Jul 2019 03:39:44: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:39:44: #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 03:39:44: #1 tags after filtering in treatment: 6524822 INFO @ Sat, 06 Jul 2019 03:39:44: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 06 Jul 2019 03:39:44: #1 finished! INFO @ Sat, 06 Jul 2019 03:39:44: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:39:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:39:45: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:39:45: 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 03:39:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.10_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/SRX5126607/SRX5126607.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126607/SRX5126607.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling