Job ID = 3805983 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 12,112,144 reads read : 12,112,144 reads written : 12,112,144 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: 00:03:50 12112144 reads; of these: 12112144 (100.00%) were unpaired; of these: 270685 (2.23%) aligned 0 times 9735832 (80.38%) aligned exactly 1 time 2105627 (17.38%) aligned >1 times 97.77% overall alignment rate Time searching: 00:03:50 Overall time: 00:03:50 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] 3688727 / 11841459 = 0.3115 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Mon, 04 Nov 2019 02:38:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.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 02:38:41: #1 read tag files... INFO @ Mon, 04 Nov 2019 02:38:41: #1 read treatment tags... INFO @ Mon, 04 Nov 2019 02:38:51: 1000000 INFO @ Mon, 04 Nov 2019 02:39:01: 2000000 INFO @ Mon, 04 Nov 2019 02:39:11: 3000000 INFO @ Mon, 04 Nov 2019 02:39:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.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 02:39:11: #1 read tag files... INFO @ Mon, 04 Nov 2019 02:39:11: #1 read treatment tags... INFO @ Mon, 04 Nov 2019 02:39:21: 4000000 INFO @ Mon, 04 Nov 2019 02:39:23: 1000000 INFO @ Mon, 04 Nov 2019 02:39:31: 5000000 INFO @ Mon, 04 Nov 2019 02:39:35: 2000000 BedGraph に変換中... INFO @ Mon, 04 Nov 2019 02:39:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.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 02:39:41: #1 read tag files... INFO @ Mon, 04 Nov 2019 02:39:41: #1 read treatment tags... INFO @ Mon, 04 Nov 2019 02:39:41: 6000000 INFO @ Mon, 04 Nov 2019 02:39:47: 3000000 INFO @ Mon, 04 Nov 2019 02:39:51: 7000000 INFO @ Mon, 04 Nov 2019 02:39:51: 1000000 INFO @ Mon, 04 Nov 2019 02:39:59: 4000000 INFO @ Mon, 04 Nov 2019 02:40:02: 8000000 INFO @ Mon, 04 Nov 2019 02:40:02: 2000000 INFO @ Mon, 04 Nov 2019 02:40:03: #1 tag size is determined as 101 bps INFO @ Mon, 04 Nov 2019 02:40:03: #1 tag size = 101 INFO @ Mon, 04 Nov 2019 02:40:03: #1 total tags in treatment: 8152732 INFO @ Mon, 04 Nov 2019 02:40:03: #1 user defined the maximum tags... INFO @ Mon, 04 Nov 2019 02:40:03: #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 02:40:03: #1 tags after filtering in treatment: 8152732 INFO @ Mon, 04 Nov 2019 02:40:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Nov 2019 02:40:03: #1 finished! INFO @ Mon, 04 Nov 2019 02:40:03: #2 Build Peak Model... INFO @ Mon, 04 Nov 2019 02:40:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Nov 2019 02:40:04: #2 number of paired peaks: 0 WARNING @ Mon, 04 Nov 2019 02:40:04: 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 02:40:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.05_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/SRX4702305/SRX4702305.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 04 Nov 2019 02:40:11: 5000000 INFO @ Mon, 04 Nov 2019 02:40:12: 3000000 INFO @ Mon, 04 Nov 2019 02:40:22: 4000000 INFO @ Mon, 04 Nov 2019 02:40:22: 6000000 INFO @ Mon, 04 Nov 2019 02:40:32: 5000000 INFO @ Mon, 04 Nov 2019 02:40:34: 7000000 INFO @ Mon, 04 Nov 2019 02:40:42: 6000000 INFO @ Mon, 04 Nov 2019 02:40:46: 8000000 INFO @ Mon, 04 Nov 2019 02:40:47: #1 tag size is determined as 101 bps INFO @ Mon, 04 Nov 2019 02:40:47: #1 tag size = 101 INFO @ Mon, 04 Nov 2019 02:40:47: #1 total tags in treatment: 8152732 INFO @ Mon, 04 Nov 2019 02:40:47: #1 user defined the maximum tags... INFO @ Mon, 04 Nov 2019 02:40:47: #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 02:40:48: #1 tags after filtering in treatment: 8152732 INFO @ Mon, 04 Nov 2019 02:40:48: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Nov 2019 02:40:48: #1 finished! INFO @ Mon, 04 Nov 2019 02:40:48: #2 Build Peak Model... INFO @ Mon, 04 Nov 2019 02:40:48: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Nov 2019 02:40:48: #2 number of paired peaks: 0 WARNING @ Mon, 04 Nov 2019 02:40:48: 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 02:40:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.10_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/SRX4702305/SRX4702305.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 04 Nov 2019 02:40:52: 7000000 INFO @ Mon, 04 Nov 2019 02:41:02: 8000000 INFO @ Mon, 04 Nov 2019 02:41:03: #1 tag size is determined as 101 bps INFO @ Mon, 04 Nov 2019 02:41:03: #1 tag size = 101 INFO @ Mon, 04 Nov 2019 02:41:03: #1 total tags in treatment: 8152732 INFO @ Mon, 04 Nov 2019 02:41:03: #1 user defined the maximum tags... INFO @ Mon, 04 Nov 2019 02:41:03: #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 02:41:03: #1 tags after filtering in treatment: 8152732 INFO @ Mon, 04 Nov 2019 02:41:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Nov 2019 02:41:03: #1 finished! INFO @ Mon, 04 Nov 2019 02:41:03: #2 Build Peak Model... INFO @ Mon, 04 Nov 2019 02:41:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Nov 2019 02:41:04: #2 number of paired peaks: 0 WARNING @ Mon, 04 Nov 2019 02:41:04: 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 02:41:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.20_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/SRX4702305/SRX4702305.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702305/SRX4702305.20_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。