Job ID = 2009916 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 9,933,912 reads read : 19,867,824 reads written : 19,867,824 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR5008410.sra.cache’: 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: 00:10:11 9933912 reads; of these: 9933912 (100.00%) were paired; of these: 769945 (7.75%) aligned concordantly 0 times 8051909 (81.05%) aligned concordantly exactly 1 time 1112058 (11.19%) aligned concordantly >1 times ---- 769945 pairs aligned concordantly 0 times; of these: 308752 (40.10%) aligned discordantly 1 time ---- 461193 pairs aligned 0 times concordantly or discordantly; of these: 922386 mates make up the pairs; of these: 721758 (78.25%) aligned 0 times 93484 (10.14%) aligned exactly 1 time 107144 (11.62%) aligned >1 times 96.37% overall alignment rate Time searching: 00:10:11 Overall time: 00:10:11 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] 1106218 / 9462725 = 0.1169 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 @ Fri, 05 Jul 2019 20:56:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.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 @ Fri, 05 Jul 2019 20:56:16: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:56:16: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:56:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.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 @ Fri, 05 Jul 2019 20:56:17: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:56:17: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:56:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.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 @ Fri, 05 Jul 2019 20:56:17: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:56:17: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:56:25: 1000000 INFO @ Fri, 05 Jul 2019 20:56:25: 1000000 INFO @ Fri, 05 Jul 2019 20:56:26: 1000000 INFO @ Fri, 05 Jul 2019 20:56:32: 2000000 INFO @ Fri, 05 Jul 2019 20:56:33: 2000000 INFO @ Fri, 05 Jul 2019 20:56:36: 2000000 INFO @ Fri, 05 Jul 2019 20:56:39: 3000000 INFO @ Fri, 05 Jul 2019 20:56:41: 3000000 INFO @ Fri, 05 Jul 2019 20:56:46: 3000000 INFO @ Fri, 05 Jul 2019 20:56:46: 4000000 INFO @ Fri, 05 Jul 2019 20:56:49: 4000000 INFO @ Fri, 05 Jul 2019 20:56:53: 5000000 INFO @ Fri, 05 Jul 2019 20:56:56: 4000000 INFO @ Fri, 05 Jul 2019 20:56:57: 5000000 INFO @ Fri, 05 Jul 2019 20:57:00: 6000000 INFO @ Fri, 05 Jul 2019 20:57:05: 6000000 INFO @ Fri, 05 Jul 2019 20:57:06: 5000000 INFO @ Fri, 05 Jul 2019 20:57:08: 7000000 INFO @ Fri, 05 Jul 2019 20:57:13: 7000000 INFO @ Fri, 05 Jul 2019 20:57:15: 8000000 INFO @ Fri, 05 Jul 2019 20:57:16: 6000000 INFO @ Fri, 05 Jul 2019 20:57:21: 8000000 INFO @ Fri, 05 Jul 2019 20:57:22: 9000000 INFO @ Fri, 05 Jul 2019 20:57:26: 7000000 INFO @ Fri, 05 Jul 2019 20:57:29: 10000000 INFO @ Fri, 05 Jul 2019 20:57:29: 9000000 INFO @ Fri, 05 Jul 2019 20:57:35: 8000000 INFO @ Fri, 05 Jul 2019 20:57:36: 11000000 INFO @ Fri, 05 Jul 2019 20:57:37: 10000000 INFO @ Fri, 05 Jul 2019 20:57:43: 12000000 INFO @ Fri, 05 Jul 2019 20:57:45: 11000000 INFO @ Fri, 05 Jul 2019 20:57:45: 9000000 INFO @ Fri, 05 Jul 2019 20:57:50: 13000000 INFO @ Fri, 05 Jul 2019 20:57:53: 12000000 INFO @ Fri, 05 Jul 2019 20:57:55: 10000000 INFO @ Fri, 05 Jul 2019 20:57:57: 14000000 INFO @ Fri, 05 Jul 2019 20:58:01: 13000000 INFO @ Fri, 05 Jul 2019 20:58:04: 15000000 INFO @ Fri, 05 Jul 2019 20:58:05: 11000000 INFO @ Fri, 05 Jul 2019 20:58:09: 14000000 INFO @ Fri, 05 Jul 2019 20:58:11: 16000000 INFO @ Fri, 05 Jul 2019 20:58:15: 12000000 INFO @ Fri, 05 Jul 2019 20:58:17: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 20:58:17: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 20:58:17: #1 total tags in treatment: 8111884 INFO @ Fri, 05 Jul 2019 20:58:17: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:58:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 20:58:17: 15000000 INFO @ Fri, 05 Jul 2019 20:58:17: #1 tags after filtering in treatment: 6175092 INFO @ Fri, 05 Jul 2019 20:58:17: #1 Redundant rate of treatment: 0.24 INFO @ Fri, 05 Jul 2019 20:58:17: #1 finished! INFO @ Fri, 05 Jul 2019 20:58:17: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:58:17: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:58:18: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:58:18: 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 @ Fri, 05 Jul 2019 20:58:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:58:25: 13000000 INFO @ Fri, 05 Jul 2019 20:58:25: 16000000 INFO @ Fri, 05 Jul 2019 20:58:33: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 20:58:33: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 20:58:33: #1 total tags in treatment: 8111884 INFO @ Fri, 05 Jul 2019 20:58:33: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:58:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 20:58:33: #1 tags after filtering in treatment: 6175092 INFO @ Fri, 05 Jul 2019 20:58:33: #1 Redundant rate of treatment: 0.24 INFO @ Fri, 05 Jul 2019 20:58:33: #1 finished! INFO @ Fri, 05 Jul 2019 20:58:33: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:58:33: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:58:33: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:58:33: 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 @ Fri, 05 Jul 2019 20:58:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.10_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/SRX2339851/SRX2339851.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:58:34: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 20:58:44: 15000000 INFO @ Fri, 05 Jul 2019 20:58:53: 16000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 20:59:01: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 20:59:01: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 20:59:01: #1 total tags in treatment: 8111884 INFO @ Fri, 05 Jul 2019 20:59:01: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:59:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 20:59:01: #1 tags after filtering in treatment: 6175092 INFO @ Fri, 05 Jul 2019 20:59:01: #1 Redundant rate of treatment: 0.24 INFO @ Fri, 05 Jul 2019 20:59:01: #1 finished! INFO @ Fri, 05 Jul 2019 20:59:01: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:59:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:59:02: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:59:02: 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 @ Fri, 05 Jul 2019 20:59:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.05_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/SRX2339851/SRX2339851.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2339851/SRX2339851.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling