Job ID = 3805975 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 13,833,108 reads read : 13,833,108 reads written : 13,833,108 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: 00:05:03 13833108 reads; of these: 13833108 (100.00%) were unpaired; of these: 404514 (2.92%) aligned 0 times 11493640 (83.09%) aligned exactly 1 time 1934954 (13.99%) aligned >1 times 97.08% overall alignment rate Time searching: 00:05:04 Overall time: 00:05:04 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] 4320789 / 13428594 = 0.3218 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Mon, 04 Nov 2019 02:32:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.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 02:32:46: #1 read tag files... INFO @ Mon, 04 Nov 2019 02:32:46: #1 read treatment tags... INFO @ Mon, 04 Nov 2019 02:33:00: 1000000 INFO @ Mon, 04 Nov 2019 02:33:14: 2000000 INFO @ Mon, 04 Nov 2019 02:33:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.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 02:33:15: #1 read tag files... INFO @ Mon, 04 Nov 2019 02:33:15: #1 read treatment tags... INFO @ Mon, 04 Nov 2019 02:33:25: 1000000 INFO @ Mon, 04 Nov 2019 02:33:29: 3000000 INFO @ Mon, 04 Nov 2019 02:33:35: 2000000 BedGraph に変換中... INFO @ Mon, 04 Nov 2019 02:33:42: 4000000 INFO @ Mon, 04 Nov 2019 02:33:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.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 02:33:45: #1 read tag files... INFO @ Mon, 04 Nov 2019 02:33:45: #1 read treatment tags... INFO @ Mon, 04 Nov 2019 02:33:45: 3000000 INFO @ Mon, 04 Nov 2019 02:33:55: 4000000 INFO @ Mon, 04 Nov 2019 02:33:56: 5000000 INFO @ Mon, 04 Nov 2019 02:34:00: 1000000 INFO @ Mon, 04 Nov 2019 02:34:04: 5000000 INFO @ Mon, 04 Nov 2019 02:34:10: 6000000 INFO @ Mon, 04 Nov 2019 02:34:14: 6000000 INFO @ Mon, 04 Nov 2019 02:34:15: 2000000 INFO @ Mon, 04 Nov 2019 02:34:24: 7000000 INFO @ Mon, 04 Nov 2019 02:34:24: 7000000 INFO @ Mon, 04 Nov 2019 02:34:30: 3000000 INFO @ Mon, 04 Nov 2019 02:34:33: 8000000 INFO @ Mon, 04 Nov 2019 02:34:37: 8000000 INFO @ Mon, 04 Nov 2019 02:34:43: 9000000 INFO @ Mon, 04 Nov 2019 02:34:44: #1 tag size is determined as 101 bps INFO @ Mon, 04 Nov 2019 02:34:44: #1 tag size = 101 INFO @ Mon, 04 Nov 2019 02:34:44: #1 total tags in treatment: 9107805 INFO @ Mon, 04 Nov 2019 02:34:44: #1 user defined the maximum tags... INFO @ Mon, 04 Nov 2019 02:34:44: #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 02:34:44: #1 tags after filtering in treatment: 9107805 INFO @ Mon, 04 Nov 2019 02:34:44: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Nov 2019 02:34:44: #1 finished! INFO @ Mon, 04 Nov 2019 02:34:44: #2 Build Peak Model... INFO @ Mon, 04 Nov 2019 02:34:44: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Nov 2019 02:34:45: 4000000 INFO @ Mon, 04 Nov 2019 02:34:45: #2 number of paired peaks: 0 WARNING @ Mon, 04 Nov 2019 02:34:45: 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 02:34:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.10_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/SRX4702302/SRX4702302.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 04 Nov 2019 02:34:51: 9000000 INFO @ Mon, 04 Nov 2019 02:34:52: #1 tag size is determined as 101 bps INFO @ Mon, 04 Nov 2019 02:34:52: #1 tag size = 101 INFO @ Mon, 04 Nov 2019 02:34:52: #1 total tags in treatment: 9107805 INFO @ Mon, 04 Nov 2019 02:34:52: #1 user defined the maximum tags... INFO @ Mon, 04 Nov 2019 02:34:52: #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 02:34:52: #1 tags after filtering in treatment: 9107805 INFO @ Mon, 04 Nov 2019 02:34:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Nov 2019 02:34:52: #1 finished! INFO @ Mon, 04 Nov 2019 02:34:52: #2 Build Peak Model... INFO @ Mon, 04 Nov 2019 02:34:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Nov 2019 02:34:53: #2 number of paired peaks: 0 WARNING @ Mon, 04 Nov 2019 02:34:53: 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 02:34:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.05_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/SRX4702302/SRX4702302.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 04 Nov 2019 02:34:59: 5000000 INFO @ Mon, 04 Nov 2019 02:35:13: 6000000 INFO @ Mon, 04 Nov 2019 02:35:26: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 04 Nov 2019 02:35:39: 8000000 BigWig に変換しました。 INFO @ Mon, 04 Nov 2019 02:35:52: 9000000 INFO @ Mon, 04 Nov 2019 02:35:54: #1 tag size is determined as 101 bps INFO @ Mon, 04 Nov 2019 02:35:54: #1 tag size = 101 INFO @ Mon, 04 Nov 2019 02:35:54: #1 total tags in treatment: 9107805 INFO @ Mon, 04 Nov 2019 02:35:54: #1 user defined the maximum tags... INFO @ Mon, 04 Nov 2019 02:35:54: #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 02:35:54: #1 tags after filtering in treatment: 9107805 INFO @ Mon, 04 Nov 2019 02:35:54: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Nov 2019 02:35:54: #1 finished! INFO @ Mon, 04 Nov 2019 02:35:54: #2 Build Peak Model... INFO @ Mon, 04 Nov 2019 02:35:54: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Nov 2019 02:35:55: #2 number of paired peaks: 0 WARNING @ Mon, 04 Nov 2019 02:35:55: 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 02:35:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.20_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/SRX4702302/SRX4702302.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4702302/SRX4702302.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling