Job ID = 3805982 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 12,685,453 reads read : 12,685,453 reads written : 12,685,453 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: 00:04:05 12685453 reads; of these: 12685453 (100.00%) were unpaired; of these: 313938 (2.47%) aligned 0 times 10128854 (79.85%) aligned exactly 1 time 2242661 (17.68%) aligned >1 times 97.53% overall alignment rate Time searching: 00:04:05 Overall time: 00:04:05 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_rmdupse_core] 4014037 / 12371515 = 0.3245 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Mon, 04 Nov 2019 02:33:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.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 @ Mon, 04 Nov 2019 02:33:33: #1 read tag files... INFO @ Mon, 04 Nov 2019 02:33:33: #1 read treatment tags... INFO @ Mon, 04 Nov 2019 02:33:44: 1000000 INFO @ Mon, 04 Nov 2019 02:33:54: 2000000 INFO @ Mon, 04 Nov 2019 02:34:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.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 @ Mon, 04 Nov 2019 02:34:02: #1 read tag files... INFO @ Mon, 04 Nov 2019 02:34:02: #1 read treatment tags... INFO @ Mon, 04 Nov 2019 02:34:05: 3000000 INFO @ Mon, 04 Nov 2019 02:34:13: 1000000 INFO @ Mon, 04 Nov 2019 02:34:15: 4000000 INFO @ Mon, 04 Nov 2019 02:34:24: 2000000 INFO @ Mon, 04 Nov 2019 02:34:26: 5000000 BedGraph に変換中... INFO @ Mon, 04 Nov 2019 02:34:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.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 @ Mon, 04 Nov 2019 02:34:32: #1 read tag files... INFO @ Mon, 04 Nov 2019 02:34:32: #1 read treatment tags... INFO @ Mon, 04 Nov 2019 02:34:35: 3000000 INFO @ Mon, 04 Nov 2019 02:34:36: 6000000 INFO @ Mon, 04 Nov 2019 02:34:42: 1000000 INFO @ Mon, 04 Nov 2019 02:34:46: 7000000 INFO @ Mon, 04 Nov 2019 02:34:46: 4000000 INFO @ Mon, 04 Nov 2019 02:34:50: 2000000 INFO @ Mon, 04 Nov 2019 02:34:56: 8000000 INFO @ Mon, 04 Nov 2019 02:34:58: 5000000 INFO @ Mon, 04 Nov 2019 02:34:59: 3000000 INFO @ Mon, 04 Nov 2019 02:34:59: #1 tag size is determined as 101 bps INFO @ Mon, 04 Nov 2019 02:34:59: #1 tag size = 101 INFO @ Mon, 04 Nov 2019 02:34:59: #1 total tags in treatment: 8357478 INFO @ Mon, 04 Nov 2019 02:34:59: #1 user defined the maximum tags... INFO @ Mon, 04 Nov 2019 02:34:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 04 Nov 2019 02:35:00: #1 tags after filtering in treatment: 8357478 INFO @ Mon, 04 Nov 2019 02:35:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Nov 2019 02:35:00: #1 finished! INFO @ Mon, 04 Nov 2019 02:35:00: #2 Build Peak Model... INFO @ Mon, 04 Nov 2019 02:35:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Nov 2019 02:35:00: #2 number of paired peaks: 0 WARNING @ Mon, 04 Nov 2019 02:35:00: 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 @ Mon, 04 Nov 2019 02:35:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.05_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/SRX4702304/SRX4702304.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 04 Nov 2019 02:35:07: 4000000 INFO @ Mon, 04 Nov 2019 02:35:08: 6000000 INFO @ Mon, 04 Nov 2019 02:35:16: 5000000 INFO @ Mon, 04 Nov 2019 02:35:18: 7000000 INFO @ Mon, 04 Nov 2019 02:35:24: 6000000 INFO @ Mon, 04 Nov 2019 02:35:28: 8000000 INFO @ Mon, 04 Nov 2019 02:35:32: 7000000 INFO @ Mon, 04 Nov 2019 02:35:32: #1 tag size is determined as 101 bps INFO @ Mon, 04 Nov 2019 02:35:32: #1 tag size = 101 INFO @ Mon, 04 Nov 2019 02:35:32: #1 total tags in treatment: 8357478 INFO @ Mon, 04 Nov 2019 02:35:32: #1 user defined the maximum tags... INFO @ Mon, 04 Nov 2019 02:35:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 04 Nov 2019 02:35:32: #1 tags after filtering in treatment: 8357478 INFO @ Mon, 04 Nov 2019 02:35:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Nov 2019 02:35:32: #1 finished! INFO @ Mon, 04 Nov 2019 02:35:32: #2 Build Peak Model... INFO @ Mon, 04 Nov 2019 02:35:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Nov 2019 02:35:32: #2 number of paired peaks: 0 WARNING @ Mon, 04 Nov 2019 02:35:32: 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 @ Mon, 04 Nov 2019 02:35:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.10_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/SRX4702304/SRX4702304.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 04 Nov 2019 02:35:39: 8000000 INFO @ Mon, 04 Nov 2019 02:35:42: #1 tag size is determined as 101 bps INFO @ Mon, 04 Nov 2019 02:35:42: #1 tag size = 101 INFO @ Mon, 04 Nov 2019 02:35:42: #1 total tags in treatment: 8357478 INFO @ Mon, 04 Nov 2019 02:35:42: #1 user defined the maximum tags... INFO @ Mon, 04 Nov 2019 02:35:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 04 Nov 2019 02:35:42: #1 tags after filtering in treatment: 8357478 INFO @ Mon, 04 Nov 2019 02:35:42: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Nov 2019 02:35:42: #1 finished! INFO @ Mon, 04 Nov 2019 02:35:42: #2 Build Peak Model... INFO @ Mon, 04 Nov 2019 02:35:42: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Nov 2019 02:35:43: #2 number of paired peaks: 0 WARNING @ Mon, 04 Nov 2019 02:35:43: 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 @ Mon, 04 Nov 2019 02:35:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.20_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/SRX4702304/SRX4702304.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702304/SRX4702304.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。