Job ID = 2010742 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 8,911,700 reads read : 17,823,400 reads written : 17,823,400 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: 00:07:59 8911700 reads; of these: 8911700 (100.00%) were paired; of these: 1465673 (16.45%) aligned concordantly 0 times 6517136 (73.13%) aligned concordantly exactly 1 time 928891 (10.42%) aligned concordantly >1 times ---- 1465673 pairs aligned concordantly 0 times; of these: 109363 (7.46%) aligned discordantly 1 time ---- 1356310 pairs aligned 0 times concordantly or discordantly; of these: 2712620 mates make up the pairs; of these: 2342380 (86.35%) aligned 0 times 272795 (10.06%) aligned exactly 1 time 97445 (3.59%) aligned >1 times 86.86% overall alignment rate Time searching: 00:07:59 Overall time: 00:07:59 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] 103417 / 7531014 = 0.0137 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 00:36:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.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 00:36:45: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:36:45: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:36:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.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 00:36:46: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:36:46: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:36:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.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 00:36:47: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:36:47: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:36:54: 1000000 INFO @ Sat, 06 Jul 2019 00:36:56: 1000000 INFO @ Sat, 06 Jul 2019 00:36:56: 1000000 INFO @ Sat, 06 Jul 2019 00:37:04: 2000000 INFO @ Sat, 06 Jul 2019 00:37:05: 2000000 INFO @ Sat, 06 Jul 2019 00:37:06: 2000000 INFO @ Sat, 06 Jul 2019 00:37:14: 3000000 INFO @ Sat, 06 Jul 2019 00:37:14: 3000000 INFO @ Sat, 06 Jul 2019 00:37:15: 3000000 INFO @ Sat, 06 Jul 2019 00:37:23: 4000000 INFO @ Sat, 06 Jul 2019 00:37:24: 4000000 INFO @ Sat, 06 Jul 2019 00:37:25: 4000000 INFO @ Sat, 06 Jul 2019 00:37:32: 5000000 INFO @ Sat, 06 Jul 2019 00:37:34: 5000000 INFO @ Sat, 06 Jul 2019 00:37:35: 5000000 INFO @ Sat, 06 Jul 2019 00:37:40: 6000000 INFO @ Sat, 06 Jul 2019 00:37:43: 6000000 INFO @ Sat, 06 Jul 2019 00:37:46: 6000000 INFO @ Sat, 06 Jul 2019 00:37:49: 7000000 INFO @ Sat, 06 Jul 2019 00:37:53: 7000000 INFO @ Sat, 06 Jul 2019 00:37:55: 7000000 INFO @ Sat, 06 Jul 2019 00:37:58: 8000000 INFO @ Sat, 06 Jul 2019 00:38:03: 8000000 INFO @ Sat, 06 Jul 2019 00:38:05: 8000000 INFO @ Sat, 06 Jul 2019 00:38:07: 9000000 INFO @ Sat, 06 Jul 2019 00:38:12: 9000000 INFO @ Sat, 06 Jul 2019 00:38:15: 10000000 INFO @ Sat, 06 Jul 2019 00:38:15: 9000000 INFO @ Sat, 06 Jul 2019 00:38:21: 10000000 INFO @ Sat, 06 Jul 2019 00:38:24: 11000000 INFO @ Sat, 06 Jul 2019 00:38:26: 10000000 INFO @ Sat, 06 Jul 2019 00:38:30: 11000000 INFO @ Sat, 06 Jul 2019 00:38:33: 12000000 INFO @ Sat, 06 Jul 2019 00:38:36: 11000000 INFO @ Sat, 06 Jul 2019 00:38:39: 12000000 INFO @ Sat, 06 Jul 2019 00:38:41: 13000000 INFO @ Sat, 06 Jul 2019 00:38:48: 13000000 INFO @ Sat, 06 Jul 2019 00:38:49: 12000000 INFO @ Sat, 06 Jul 2019 00:38:50: 14000000 INFO @ Sat, 06 Jul 2019 00:38:58: 14000000 INFO @ Sat, 06 Jul 2019 00:38:59: 15000000 INFO @ Sat, 06 Jul 2019 00:39:00: 13000000 INFO @ Sat, 06 Jul 2019 00:39:01: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:39:01: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:39:01: #1 total tags in treatment: 7343244 INFO @ Sat, 06 Jul 2019 00:39:01: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:39:01: #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 00:39:01: #1 tags after filtering in treatment: 5837347 INFO @ Sat, 06 Jul 2019 00:39:01: #1 Redundant rate of treatment: 0.21 INFO @ Sat, 06 Jul 2019 00:39:01: #1 finished! INFO @ Sat, 06 Jul 2019 00:39:01: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:39:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:39:02: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:39:02: 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 00:39:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.20_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/SRX386922/SRX386922.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 00:39:07: 15000000 INFO @ Sat, 06 Jul 2019 00:39:10: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:39:10: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:39:10: #1 total tags in treatment: 7343244 INFO @ Sat, 06 Jul 2019 00:39:10: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:39:10: #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 00:39:10: #1 tags after filtering in treatment: 5837347 INFO @ Sat, 06 Jul 2019 00:39:10: #1 Redundant rate of treatment: 0.21 INFO @ Sat, 06 Jul 2019 00:39:10: #1 finished! INFO @ Sat, 06 Jul 2019 00:39:10: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:39:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:39:10: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:39:10: 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 00:39:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.10_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/SRX386922/SRX386922.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:39:10: 14000000 INFO @ Sat, 06 Jul 2019 00:39:20: 15000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 00:39:23: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:39:23: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:39:23: #1 total tags in treatment: 7343244 INFO @ Sat, 06 Jul 2019 00:39:23: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:39:23: #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 00:39:23: #1 tags after filtering in treatment: 5837347 INFO @ Sat, 06 Jul 2019 00:39:23: #1 Redundant rate of treatment: 0.21 INFO @ Sat, 06 Jul 2019 00:39:23: #1 finished! INFO @ Sat, 06 Jul 2019 00:39:23: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:39:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:39:24: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:39:24: 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 00:39:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.05_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/SRX386922/SRX386922.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386922/SRX386922.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling