Job ID = 7100243 SRX = SRX6911515 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 18798378 spots for SRR10191158/SRR10191158.sra Written 18798378 spots for SRR10191158/SRR10191158.sra 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: 00:18:25 18798378 reads; of these: 18798378 (100.00%) were paired; of these: 5454807 (29.02%) aligned concordantly 0 times 11285395 (60.03%) aligned concordantly exactly 1 time 2058176 (10.95%) aligned concordantly >1 times ---- 5454807 pairs aligned concordantly 0 times; of these: 735298 (13.48%) aligned discordantly 1 time ---- 4719509 pairs aligned 0 times concordantly or discordantly; of these: 9439018 mates make up the pairs; of these: 8647951 (91.62%) aligned 0 times 447228 (4.74%) aligned exactly 1 time 343839 (3.64%) aligned >1 times 77.00% overall alignment rate Time searching: 00:18:25 Overall time: 00:18:25 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 12 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] 1705745 / 14077105 = 0.1212 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 12:40:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.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 @ Wed, 22 Jul 2020 12:40:43: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:40:43: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:40:49: 1000000 INFO @ Wed, 22 Jul 2020 12:40:55: 2000000 INFO @ Wed, 22 Jul 2020 12:41:01: 3000000 INFO @ Wed, 22 Jul 2020 12:41:06: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 12:41:12: 5000000 INFO @ Wed, 22 Jul 2020 12:41:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.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 @ Wed, 22 Jul 2020 12:41:13: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:41:13: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:41:18: 6000000 INFO @ Wed, 22 Jul 2020 12:41:19: 1000000 INFO @ Wed, 22 Jul 2020 12:41:24: 7000000 INFO @ Wed, 22 Jul 2020 12:41:25: 2000000 INFO @ Wed, 22 Jul 2020 12:41:30: 8000000 INFO @ Wed, 22 Jul 2020 12:41:31: 3000000 INFO @ Wed, 22 Jul 2020 12:41:36: 9000000 INFO @ Wed, 22 Jul 2020 12:41:37: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 12:41:42: 10000000 INFO @ Wed, 22 Jul 2020 12:41:43: 5000000 INFO @ Wed, 22 Jul 2020 12:41:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.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 @ Wed, 22 Jul 2020 12:41:43: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:41:43: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:41:48: 11000000 INFO @ Wed, 22 Jul 2020 12:41:49: 6000000 INFO @ Wed, 22 Jul 2020 12:41:50: 1000000 INFO @ Wed, 22 Jul 2020 12:41:54: 12000000 INFO @ Wed, 22 Jul 2020 12:41:55: 7000000 INFO @ Wed, 22 Jul 2020 12:41:56: 2000000 INFO @ Wed, 22 Jul 2020 12:42:00: 13000000 INFO @ Wed, 22 Jul 2020 12:42:01: 8000000 INFO @ Wed, 22 Jul 2020 12:42:02: 3000000 INFO @ Wed, 22 Jul 2020 12:42:06: 14000000 INFO @ Wed, 22 Jul 2020 12:42:07: 9000000 INFO @ Wed, 22 Jul 2020 12:42:08: 4000000 INFO @ Wed, 22 Jul 2020 12:42:12: 15000000 INFO @ Wed, 22 Jul 2020 12:42:13: 10000000 INFO @ Wed, 22 Jul 2020 12:42:14: 5000000 INFO @ Wed, 22 Jul 2020 12:42:19: 16000000 INFO @ Wed, 22 Jul 2020 12:42:19: 11000000 INFO @ Wed, 22 Jul 2020 12:42:20: 6000000 INFO @ Wed, 22 Jul 2020 12:42:25: 17000000 INFO @ Wed, 22 Jul 2020 12:42:25: 12000000 INFO @ Wed, 22 Jul 2020 12:42:26: 7000000 INFO @ Wed, 22 Jul 2020 12:42:31: 18000000 INFO @ Wed, 22 Jul 2020 12:42:31: 13000000 INFO @ Wed, 22 Jul 2020 12:42:32: 8000000 INFO @ Wed, 22 Jul 2020 12:42:37: 14000000 INFO @ Wed, 22 Jul 2020 12:42:37: 19000000 INFO @ Wed, 22 Jul 2020 12:42:38: 9000000 INFO @ Wed, 22 Jul 2020 12:42:43: 15000000 INFO @ Wed, 22 Jul 2020 12:42:43: 20000000 INFO @ Wed, 22 Jul 2020 12:42:44: 10000000 INFO @ Wed, 22 Jul 2020 12:42:49: 16000000 INFO @ Wed, 22 Jul 2020 12:42:49: 21000000 INFO @ Wed, 22 Jul 2020 12:42:50: 11000000 INFO @ Wed, 22 Jul 2020 12:42:55: 17000000 INFO @ Wed, 22 Jul 2020 12:42:56: 22000000 INFO @ Wed, 22 Jul 2020 12:42:56: 12000000 INFO @ Wed, 22 Jul 2020 12:43:00: 18000000 INFO @ Wed, 22 Jul 2020 12:43:02: 23000000 INFO @ Wed, 22 Jul 2020 12:43:02: 13000000 INFO @ Wed, 22 Jul 2020 12:43:06: 19000000 INFO @ Wed, 22 Jul 2020 12:43:08: 24000000 INFO @ Wed, 22 Jul 2020 12:43:08: 14000000 INFO @ Wed, 22 Jul 2020 12:43:12: 20000000 INFO @ Wed, 22 Jul 2020 12:43:14: 25000000 INFO @ Wed, 22 Jul 2020 12:43:14: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 12:43:17: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:43:17: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:43:17: #1 total tags in treatment: 11675037 INFO @ Wed, 22 Jul 2020 12:43:17: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:43:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 12:43:18: #1 tags after filtering in treatment: 5362714 INFO @ Wed, 22 Jul 2020 12:43:18: #1 Redundant rate of treatment: 0.54 INFO @ Wed, 22 Jul 2020 12:43:18: #1 finished! INFO @ Wed, 22 Jul 2020 12:43:18: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:43:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:43:18: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 12:43:18: 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 @ Wed, 22 Jul 2020 12:43:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis INFO @ Wed, 22 Jul 2020 12:43:18: 21000000 needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 12:43:20: 16000000 INFO @ Wed, 22 Jul 2020 12:43:24: 22000000 INFO @ Wed, 22 Jul 2020 12:43:26: 17000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 12:43:30: 23000000 INFO @ Wed, 22 Jul 2020 12:43:31: 18000000 INFO @ Wed, 22 Jul 2020 12:43:36: 24000000 INFO @ Wed, 22 Jul 2020 12:43:37: 19000000 INFO @ Wed, 22 Jul 2020 12:43:42: 25000000 INFO @ Wed, 22 Jul 2020 12:43:43: 20000000 INFO @ Wed, 22 Jul 2020 12:43:45: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:43:45: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:43:45: #1 total tags in treatment: 11675037 INFO @ Wed, 22 Jul 2020 12:43:45: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:43:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 12:43:45: #1 tags after filtering in treatment: 5362714 INFO @ Wed, 22 Jul 2020 12:43:45: #1 Redundant rate of treatment: 0.54 INFO @ Wed, 22 Jul 2020 12:43:45: #1 finished! INFO @ Wed, 22 Jul 2020 12:43:45: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:43:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:43:45: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 12:43:45: 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 @ Wed, 22 Jul 2020 12:43:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.10_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/SRX6911515/SRX6911515.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 12:43:49: 21000000 INFO @ Wed, 22 Jul 2020 12:43:55: 22000000 INFO @ Wed, 22 Jul 2020 12:44:00: 23000000 INFO @ Wed, 22 Jul 2020 12:44:06: 24000000 INFO @ Wed, 22 Jul 2020 12:44:12: 25000000 INFO @ Wed, 22 Jul 2020 12:44:15: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:44:15: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:44:15: #1 total tags in treatment: 11675037 INFO @ Wed, 22 Jul 2020 12:44:15: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:44:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 12:44:15: #1 tags after filtering in treatment: 5362714 INFO @ Wed, 22 Jul 2020 12:44:15: #1 Redundant rate of treatment: 0.54 INFO @ Wed, 22 Jul 2020 12:44:15: #1 finished! INFO @ Wed, 22 Jul 2020 12:44:15: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:44:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:44:15: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 12:44:15: 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 @ Wed, 22 Jul 2020 12:44:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911515/SRX6911515.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling