Job ID = 2011851 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 19,890,416 reads read : 39,780,832 reads written : 39,780,825 reads 0-length : 7 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 Warning: skipping mate #1 of read 'SRR8313298.763387 763387 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.763387 763387 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313298.1408210 1408210 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.1408210 1408210 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313298.2212888 2212888 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.2212888 2212888 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313298.2858847 2858847 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.2858847 2858847 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313298.3848546 3848546 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.3848546 3848546 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313298.4558780 4558780 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.4558780 4558780 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313298.6671567 6671567 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.6671567 6671567 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313298.7449423 7449423 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.7449423 7449423 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313298.8870703 8870703 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.8870703 8870703 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313298.12287099 12287099 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.12287099 12287099 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313298.16095334 16095334 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.16095334 16095334 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313298.17267324 17267324 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.17267324 17267324 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313298.17354088 17354088 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.17354088 17354088 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313298.17778086 17778086 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.17778086 17778086 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313298.17807520 17807520 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313298.17807520 17807520 length=1' because it was < 2 characters long 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] 2843077 / 18937618 = 0.1501 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 03:42:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.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 03:42:55: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:42:55: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:42:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.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 03:42:56: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:42:56: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:42:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.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 03:42:57: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:42:57: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:43:07: 1000000 INFO @ Sat, 06 Jul 2019 03:43:07: 1000000 INFO @ Sat, 06 Jul 2019 03:43:08: 1000000 INFO @ Sat, 06 Jul 2019 03:43:21: 2000000 INFO @ Sat, 06 Jul 2019 03:43:21: 2000000 INFO @ Sat, 06 Jul 2019 03:43:22: 2000000 INFO @ Sat, 06 Jul 2019 03:43:32: 3000000 INFO @ Sat, 06 Jul 2019 03:43:32: 3000000 INFO @ Sat, 06 Jul 2019 03:43:36: 3000000 INFO @ Sat, 06 Jul 2019 03:43:44: 4000000 INFO @ Sat, 06 Jul 2019 03:43:44: 4000000 INFO @ Sat, 06 Jul 2019 03:43:50: 4000000 INFO @ Sat, 06 Jul 2019 03:43:55: 5000000 INFO @ Sat, 06 Jul 2019 03:43:55: 5000000 INFO @ Sat, 06 Jul 2019 03:44:05: 5000000 INFO @ Sat, 06 Jul 2019 03:44:07: 6000000 INFO @ Sat, 06 Jul 2019 03:44:07: 6000000 INFO @ Sat, 06 Jul 2019 03:44:18: 7000000 INFO @ Sat, 06 Jul 2019 03:44:18: 7000000 INFO @ Sat, 06 Jul 2019 03:44:18: 6000000 INFO @ Sat, 06 Jul 2019 03:44:28: 8000000 INFO @ Sat, 06 Jul 2019 03:44:28: 8000000 INFO @ Sat, 06 Jul 2019 03:44:30: 7000000 INFO @ Sat, 06 Jul 2019 03:44:38: 9000000 INFO @ Sat, 06 Jul 2019 03:44:38: 9000000 INFO @ Sat, 06 Jul 2019 03:44:42: 8000000 INFO @ Sat, 06 Jul 2019 03:44:48: 10000000 INFO @ Sat, 06 Jul 2019 03:44:48: 10000000 INFO @ Sat, 06 Jul 2019 03:44:53: 9000000 INFO @ Sat, 06 Jul 2019 03:44:57: 11000000 INFO @ Sat, 06 Jul 2019 03:44:58: 11000000 INFO @ Sat, 06 Jul 2019 03:45:03: 10000000 INFO @ Sat, 06 Jul 2019 03:45:06: 12000000 INFO @ Sat, 06 Jul 2019 03:45:07: 12000000 INFO @ Sat, 06 Jul 2019 03:45:14: 11000000 INFO @ Sat, 06 Jul 2019 03:45:15: 13000000 INFO @ Sat, 06 Jul 2019 03:45:17: 13000000 INFO @ Sat, 06 Jul 2019 03:45:24: 12000000 INFO @ Sat, 06 Jul 2019 03:45:24: 14000000 INFO @ Sat, 06 Jul 2019 03:45:26: 14000000 INFO @ Sat, 06 Jul 2019 03:45:34: 15000000 INFO @ Sat, 06 Jul 2019 03:45:35: 13000000 INFO @ Sat, 06 Jul 2019 03:45:35: 15000000 INFO @ Sat, 06 Jul 2019 03:45:43: 16000000 INFO @ Sat, 06 Jul 2019 03:45:44: 16000000 INFO @ Sat, 06 Jul 2019 03:45:45: 14000000 INFO @ Sat, 06 Jul 2019 03:45:52: 17000000 INFO @ Sat, 06 Jul 2019 03:45:54: 17000000 INFO @ Sat, 06 Jul 2019 03:45:56: 15000000 INFO @ Sat, 06 Jul 2019 03:46:01: 18000000 INFO @ Sat, 06 Jul 2019 03:46:03: 18000000 INFO @ Sat, 06 Jul 2019 03:46:06: 16000000 INFO @ Sat, 06 Jul 2019 03:46:11: 19000000 INFO @ Sat, 06 Jul 2019 03:46:12: 19000000 INFO @ Sat, 06 Jul 2019 03:46:16: 17000000 INFO @ Sat, 06 Jul 2019 03:46:20: 20000000 INFO @ Sat, 06 Jul 2019 03:46:22: 20000000 INFO @ Sat, 06 Jul 2019 03:46:27: 18000000 INFO @ Sat, 06 Jul 2019 03:46:30: 21000000 INFO @ Sat, 06 Jul 2019 03:46:31: 21000000 INFO @ Sat, 06 Jul 2019 03:46:38: 19000000 INFO @ Sat, 06 Jul 2019 03:46:39: 22000000 INFO @ Sat, 06 Jul 2019 03:46:40: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 03:46:48: 23000000 INFO @ Sat, 06 Jul 2019 03:46:48: 20000000 INFO @ Sat, 06 Jul 2019 03:46:50: 23000000 INFO @ Sat, 06 Jul 2019 03:46:57: 24000000 INFO @ Sat, 06 Jul 2019 03:46:59: 24000000 INFO @ Sat, 06 Jul 2019 03:46:59: 21000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 03:47:07: 25000000 INFO @ Sat, 06 Jul 2019 03:47:08: 25000000 INFO @ Sat, 06 Jul 2019 03:47:10: 22000000 INFO @ Sat, 06 Jul 2019 03:47:16: 26000000 INFO @ Sat, 06 Jul 2019 03:47:17: 26000000 INFO @ Sat, 06 Jul 2019 03:47:20: 23000000 INFO @ Sat, 06 Jul 2019 03:47:25: 27000000 INFO @ Sat, 06 Jul 2019 03:47:26: 27000000 INFO @ Sat, 06 Jul 2019 03:47:31: 24000000 INFO @ Sat, 06 Jul 2019 03:47:34: 28000000 INFO @ Sat, 06 Jul 2019 03:47:35: 28000000 INFO @ Sat, 06 Jul 2019 03:47:41: 25000000 INFO @ Sat, 06 Jul 2019 03:47:43: 29000000 INFO @ Sat, 06 Jul 2019 03:47:44: 29000000 INFO @ Sat, 06 Jul 2019 03:47:52: 26000000 INFO @ Sat, 06 Jul 2019 03:47:52: 30000000 INFO @ Sat, 06 Jul 2019 03:47:54: 30000000 INFO @ Sat, 06 Jul 2019 03:48:02: 31000000 INFO @ Sat, 06 Jul 2019 03:48:02: 27000000 INFO @ Sat, 06 Jul 2019 03:48:03: 31000000 INFO @ Sat, 06 Jul 2019 03:48:11: 32000000 INFO @ Sat, 06 Jul 2019 03:48:12: 32000000 INFO @ Sat, 06 Jul 2019 03:48:12: 28000000 INFO @ Sat, 06 Jul 2019 03:48:17: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 03:48:17: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 03:48:17: #1 total tags in treatment: 16057268 INFO @ Sat, 06 Jul 2019 03:48:17: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:48:17: #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 03:48:17: #1 tags after filtering in treatment: 8937940 INFO @ Sat, 06 Jul 2019 03:48:17: #1 Redundant rate of treatment: 0.44 INFO @ Sat, 06 Jul 2019 03:48:17: #1 finished! INFO @ Sat, 06 Jul 2019 03:48:17: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:48:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:48:18: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 03:48:18: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 03:48:18: #1 total tags in treatment: 16057268 INFO @ Sat, 06 Jul 2019 03:48:18: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:48:18: #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 03:48:18: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:48:18: 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 03:48:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.20_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/SRX5126606/SRX5126606.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 03:48:18: #1 tags after filtering in treatment: 8937940 INFO @ Sat, 06 Jul 2019 03:48:18: #1 Redundant rate of treatment: 0.44 INFO @ Sat, 06 Jul 2019 03:48:18: #1 finished! INFO @ Sat, 06 Jul 2019 03:48:18: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:48:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:48:19: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:48:19: 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 03:48:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 03:48:22: 29000000 INFO @ Sat, 06 Jul 2019 03:48:32: 30000000 INFO @ Sat, 06 Jul 2019 03:48:42: 31000000 INFO @ Sat, 06 Jul 2019 03:48:51: 32000000 INFO @ Sat, 06 Jul 2019 03:48:58: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 03:48:58: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 03:48:58: #1 total tags in treatment: 16057268 INFO @ Sat, 06 Jul 2019 03:48:58: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:48:58: #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 03:48:58: #1 tags after filtering in treatment: 8937940 INFO @ Sat, 06 Jul 2019 03:48:58: #1 Redundant rate of treatment: 0.44 INFO @ Sat, 06 Jul 2019 03:48:58: #1 finished! INFO @ Sat, 06 Jul 2019 03:48:58: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:48:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:48:59: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:48:59: 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 03:48:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.05_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/SRX5126606/SRX5126606.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126606/SRX5126606.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling