Job ID = 14519707 SRX = SRX9067188 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 11625398 spots for SRR12580341/SRR12580341.sra Written 11625398 spots for SRR12580341/SRR12580341.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: 00:04:35 11625398 reads; of these: 11625398 (100.00%) were paired; of these: 1397804 (12.02%) aligned concordantly 0 times 8068551 (69.40%) aligned concordantly exactly 1 time 2159043 (18.57%) aligned concordantly >1 times ---- 1397804 pairs aligned concordantly 0 times; of these: 188102 (13.46%) aligned discordantly 1 time ---- 1209702 pairs aligned 0 times concordantly or discordantly; of these: 2419404 mates make up the pairs; of these: 1836559 (75.91%) aligned 0 times 391768 (16.19%) aligned exactly 1 time 191077 (7.90%) aligned >1 times 92.10% overall alignment rate Time searching: 00:04:35 Overall time: 00:04:35 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] 2433795 / 10387911 = 0.2343 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 17:40:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.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 @ Sat, 15 Jan 2022 17:40:07: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:40:07: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:40:11: 1000000 INFO @ Sat, 15 Jan 2022 17:40:15: 2000000 INFO @ Sat, 15 Jan 2022 17:40:19: 3000000 INFO @ Sat, 15 Jan 2022 17:40:23: 4000000 INFO @ Sat, 15 Jan 2022 17:40:26: 5000000 INFO @ Sat, 15 Jan 2022 17:40:30: 6000000 INFO @ Sat, 15 Jan 2022 17:40:34: 7000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 17:40:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.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 @ Sat, 15 Jan 2022 17:40:37: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:40:37: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:40:38: 8000000 INFO @ Sat, 15 Jan 2022 17:40:41: 1000000 INFO @ Sat, 15 Jan 2022 17:40:42: 9000000 INFO @ Sat, 15 Jan 2022 17:40:45: 2000000 INFO @ Sat, 15 Jan 2022 17:40:46: 10000000 INFO @ Sat, 15 Jan 2022 17:40:49: 3000000 INFO @ Sat, 15 Jan 2022 17:40:50: 11000000 INFO @ Sat, 15 Jan 2022 17:40:53: 4000000 INFO @ Sat, 15 Jan 2022 17:40:54: 12000000 INFO @ Sat, 15 Jan 2022 17:40:57: 5000000 INFO @ Sat, 15 Jan 2022 17:40:58: 13000000 INFO @ Sat, 15 Jan 2022 17:41:01: 6000000 INFO @ Sat, 15 Jan 2022 17:41:02: 14000000 INFO @ Sat, 15 Jan 2022 17:41:05: 7000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 17:41:06: 15000000 INFO @ Sat, 15 Jan 2022 17:41:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.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 @ Sat, 15 Jan 2022 17:41:07: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:41:07: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:41:09: 8000000 INFO @ Sat, 15 Jan 2022 17:41:10: 16000000 INFO @ Sat, 15 Jan 2022 17:41:11: 1000000 INFO @ Sat, 15 Jan 2022 17:41:12: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 17:41:12: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 17:41:12: #1 total tags in treatment: 7805755 INFO @ Sat, 15 Jan 2022 17:41:12: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:41:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 17:41:12: #1 tags after filtering in treatment: 4541152 INFO @ Sat, 15 Jan 2022 17:41:12: #1 Redundant rate of treatment: 0.42 INFO @ Sat, 15 Jan 2022 17:41:12: #1 finished! INFO @ Sat, 15 Jan 2022 17:41:12: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:41:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:41:12: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:41:12: 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 @ Sat, 15 Jan 2022 17:41:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.05_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/SRX9067188/SRX9067188.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:41:12: 9000000 INFO @ Sat, 15 Jan 2022 17:41:15: 2000000 INFO @ Sat, 15 Jan 2022 17:41:16: 10000000 INFO @ Sat, 15 Jan 2022 17:41:19: 3000000 INFO @ Sat, 15 Jan 2022 17:41:20: 11000000 INFO @ Sat, 15 Jan 2022 17:41:23: 4000000 INFO @ Sat, 15 Jan 2022 17:41:24: 12000000 INFO @ Sat, 15 Jan 2022 17:41:27: 5000000 INFO @ Sat, 15 Jan 2022 17:41:28: 13000000 INFO @ Sat, 15 Jan 2022 17:41:31: 6000000 INFO @ Sat, 15 Jan 2022 17:41:32: 14000000 INFO @ Sat, 15 Jan 2022 17:41:35: 7000000 INFO @ Sat, 15 Jan 2022 17:41:36: 15000000 INFO @ Sat, 15 Jan 2022 17:41:39: 8000000 INFO @ Sat, 15 Jan 2022 17:41:40: 16000000 INFO @ Sat, 15 Jan 2022 17:41:42: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 17:41:42: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 17:41:42: #1 total tags in treatment: 7805755 INFO @ Sat, 15 Jan 2022 17:41:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:41:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 17:41:43: #1 tags after filtering in treatment: 4541152 INFO @ Sat, 15 Jan 2022 17:41:43: #1 Redundant rate of treatment: 0.42 INFO @ Sat, 15 Jan 2022 17:41:43: #1 finished! INFO @ Sat, 15 Jan 2022 17:41:43: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:41:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:41:43: 9000000 INFO @ Sat, 15 Jan 2022 17:41:43: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:41:43: 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 @ Sat, 15 Jan 2022 17:41:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.10_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/SRX9067188/SRX9067188.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:41:46: 10000000 INFO @ Sat, 15 Jan 2022 17:41:50: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:41:54: 12000000 INFO @ Sat, 15 Jan 2022 17:41:58: 13000000 INFO @ Sat, 15 Jan 2022 17:42:02: 14000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:42:06: 15000000 INFO @ Sat, 15 Jan 2022 17:42:10: 16000000 INFO @ Sat, 15 Jan 2022 17:42:12: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 17:42:12: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 17:42:12: #1 total tags in treatment: 7805755 INFO @ Sat, 15 Jan 2022 17:42:12: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:42:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 17:42:12: #1 tags after filtering in treatment: 4541152 INFO @ Sat, 15 Jan 2022 17:42:12: #1 Redundant rate of treatment: 0.42 INFO @ Sat, 15 Jan 2022 17:42:12: #1 finished! INFO @ Sat, 15 Jan 2022 17:42:12: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:42:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:42:12: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:42:12: 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 @ Sat, 15 Jan 2022 17:42:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.20_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/SRX9067188/SRX9067188.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067188/SRX9067188.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling