Job ID = 2010745 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 13,841,638 reads read : 27,683,276 reads written : 27,683,276 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: 00:12:54 13841638 reads; of these: 13841638 (100.00%) were paired; of these: 1942179 (14.03%) aligned concordantly 0 times 10452836 (75.52%) aligned concordantly exactly 1 time 1446623 (10.45%) aligned concordantly >1 times ---- 1942179 pairs aligned concordantly 0 times; of these: 174941 (9.01%) aligned discordantly 1 time ---- 1767238 pairs aligned 0 times concordantly or discordantly; of these: 3534476 mates make up the pairs; of these: 2981544 (84.36%) aligned 0 times 404008 (11.43%) aligned exactly 1 time 148924 (4.21%) aligned >1 times 89.23% overall alignment rate Time searching: 00:12:54 Overall time: 00:12:54 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 12 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] 230032 / 12035923 = 0.0191 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 00:56:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.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 00:56:37: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:56:37: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:56:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.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 00:56:37: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:56:37: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:56:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.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 00:56:38: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:56:38: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:56:47: 1000000 INFO @ Sat, 06 Jul 2019 00:56:47: 1000000 INFO @ Sat, 06 Jul 2019 00:56:47: 1000000 INFO @ Sat, 06 Jul 2019 00:56:55: 2000000 INFO @ Sat, 06 Jul 2019 00:56:57: 2000000 INFO @ Sat, 06 Jul 2019 00:56:58: 2000000 INFO @ Sat, 06 Jul 2019 00:57:03: 3000000 INFO @ Sat, 06 Jul 2019 00:57:07: 3000000 INFO @ Sat, 06 Jul 2019 00:57:08: 3000000 INFO @ Sat, 06 Jul 2019 00:57:12: 4000000 INFO @ Sat, 06 Jul 2019 00:57:16: 4000000 INFO @ Sat, 06 Jul 2019 00:57:18: 4000000 INFO @ Sat, 06 Jul 2019 00:57:20: 5000000 INFO @ Sat, 06 Jul 2019 00:57:26: 5000000 INFO @ Sat, 06 Jul 2019 00:57:28: 5000000 INFO @ Sat, 06 Jul 2019 00:57:29: 6000000 INFO @ Sat, 06 Jul 2019 00:57:36: 6000000 INFO @ Sat, 06 Jul 2019 00:57:38: 7000000 INFO @ Sat, 06 Jul 2019 00:57:39: 6000000 INFO @ Sat, 06 Jul 2019 00:57:45: 7000000 INFO @ Sat, 06 Jul 2019 00:57:47: 8000000 INFO @ Sat, 06 Jul 2019 00:57:49: 7000000 INFO @ Sat, 06 Jul 2019 00:57:54: 8000000 INFO @ Sat, 06 Jul 2019 00:57:56: 9000000 INFO @ Sat, 06 Jul 2019 00:57:59: 8000000 INFO @ Sat, 06 Jul 2019 00:58:03: 9000000 INFO @ Sat, 06 Jul 2019 00:58:05: 10000000 INFO @ Sat, 06 Jul 2019 00:58:09: 9000000 INFO @ Sat, 06 Jul 2019 00:58:13: 10000000 INFO @ Sat, 06 Jul 2019 00:58:14: 11000000 INFO @ Sat, 06 Jul 2019 00:58:19: 10000000 INFO @ Sat, 06 Jul 2019 00:58:22: 11000000 INFO @ Sat, 06 Jul 2019 00:58:23: 12000000 INFO @ Sat, 06 Jul 2019 00:58:30: 11000000 INFO @ Sat, 06 Jul 2019 00:58:31: 12000000 INFO @ Sat, 06 Jul 2019 00:58:32: 13000000 INFO @ Sat, 06 Jul 2019 00:58:40: 12000000 INFO @ Sat, 06 Jul 2019 00:58:41: 13000000 INFO @ Sat, 06 Jul 2019 00:58:41: 14000000 INFO @ Sat, 06 Jul 2019 00:58:49: 15000000 INFO @ Sat, 06 Jul 2019 00:58:49: 13000000 INFO @ Sat, 06 Jul 2019 00:58:50: 14000000 INFO @ Sat, 06 Jul 2019 00:58:57: 16000000 INFO @ Sat, 06 Jul 2019 00:58:59: 15000000 INFO @ Sat, 06 Jul 2019 00:58:59: 14000000 INFO @ Sat, 06 Jul 2019 00:59:05: 17000000 INFO @ Sat, 06 Jul 2019 00:59:08: 16000000 INFO @ Sat, 06 Jul 2019 00:59:09: 15000000 INFO @ Sat, 06 Jul 2019 00:59:13: 18000000 INFO @ Sat, 06 Jul 2019 00:59:18: 17000000 INFO @ Sat, 06 Jul 2019 00:59:20: 16000000 INFO @ Sat, 06 Jul 2019 00:59:21: 19000000 INFO @ Sat, 06 Jul 2019 00:59:27: 18000000 INFO @ Sat, 06 Jul 2019 00:59:29: 17000000 INFO @ Sat, 06 Jul 2019 00:59:30: 20000000 INFO @ Sat, 06 Jul 2019 00:59:36: 19000000 INFO @ Sat, 06 Jul 2019 00:59:38: 21000000 INFO @ Sat, 06 Jul 2019 00:59:39: 18000000 INFO @ Sat, 06 Jul 2019 00:59:45: 20000000 INFO @ Sat, 06 Jul 2019 00:59:47: 22000000 INFO @ Sat, 06 Jul 2019 00:59:49: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 00:59:54: 21000000 INFO @ Sat, 06 Jul 2019 00:59:56: 23000000 INFO @ Sat, 06 Jul 2019 00:59:59: 20000000 INFO @ Sat, 06 Jul 2019 01:00:04: 22000000 INFO @ Sat, 06 Jul 2019 01:00:04: 24000000 INFO @ Sat, 06 Jul 2019 01:00:07: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 01:00:07: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 01:00:07: #1 total tags in treatment: 11670849 INFO @ Sat, 06 Jul 2019 01:00:07: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:00:07: #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 01:00:07: #1 tags after filtering in treatment: 8533947 INFO @ Sat, 06 Jul 2019 01:00:07: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 06 Jul 2019 01:00:07: #1 finished! INFO @ Sat, 06 Jul 2019 01:00:07: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:00:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:00:08: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:00:08: 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 01:00:08: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 01:00:09: 21000000 INFO @ Sat, 06 Jul 2019 01:00:13: 23000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.20_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/SRX386925/SRX386925.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:00:18: 22000000 INFO @ Sat, 06 Jul 2019 01:00:22: 24000000 INFO @ Sat, 06 Jul 2019 01:00:24: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 01:00:24: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 01:00:24: #1 total tags in treatment: 11670849 INFO @ Sat, 06 Jul 2019 01:00:24: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:00:24: #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 01:00:24: #1 tags after filtering in treatment: 8533947 INFO @ Sat, 06 Jul 2019 01:00:24: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 06 Jul 2019 01:00:24: #1 finished! INFO @ Sat, 06 Jul 2019 01:00:24: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:00:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:00:25: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:00:25: 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 01:00:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.10_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/SRX386925/SRX386925.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:00:28: 23000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 01:00:38: 24000000 INFO @ Sat, 06 Jul 2019 01:00:40: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 01:00:40: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 01:00:40: #1 total tags in treatment: 11670849 INFO @ Sat, 06 Jul 2019 01:00:40: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:00:40: #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 01:00:41: #1 tags after filtering in treatment: 8533947 INFO @ Sat, 06 Jul 2019 01:00:41: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 06 Jul 2019 01:00:41: #1 finished! INFO @ Sat, 06 Jul 2019 01:00:41: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:00:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:00:41: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:00:41: 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 01:00:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.05_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/SRX386925/SRX386925.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386925/SRX386925.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling