Job ID = 14522097 SRX = SRX9067133 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5293704 spots for SRR12580286/SRR12580286.sra Written 5293704 spots for SRR12580286/SRR12580286.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: 00:08:36 5293704 reads; of these: 5293704 (100.00%) were paired; of these: 4120465 (77.84%) aligned concordantly 0 times 1002928 (18.95%) aligned concordantly exactly 1 time 170311 (3.22%) aligned concordantly >1 times ---- 4120465 pairs aligned concordantly 0 times; of these: 1256547 (30.50%) aligned discordantly 1 time ---- 2863918 pairs aligned 0 times concordantly or discordantly; of these: 5727836 mates make up the pairs; of these: 4643243 (81.06%) aligned 0 times 560866 (9.79%) aligned exactly 1 time 523727 (9.14%) aligned >1 times 56.14% overall alignment rate Time searching: 00:08:36 Overall time: 00:08:36 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] 195895 / 2331119 = 0.0840 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 22:21:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.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 22:21:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:21:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:21:53: 1000000 INFO @ Sat, 15 Jan 2022 22:22:03: 2000000 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 22:22:12: 3000000 INFO @ Sat, 15 Jan 2022 22:22:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.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 22:22:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:22:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:22:23: 4000000 INFO @ Sat, 15 Jan 2022 22:22:24: 1000000 INFO @ Sat, 15 Jan 2022 22:22:34: 2000000 INFO @ Sat, 15 Jan 2022 22:22:34: 5000000 INFO @ Sat, 15 Jan 2022 22:22:40: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 22:22:40: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 22:22:40: #1 total tags in treatment: 1071588 INFO @ Sat, 15 Jan 2022 22:22:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:22:40: #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 22:22:40: #1 tags after filtering in treatment: 917406 INFO @ Sat, 15 Jan 2022 22:22:40: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 15 Jan 2022 22:22:40: #1 finished! INFO @ Sat, 15 Jan 2022 22:22:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:22:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:22:40: #2 number of paired peaks: 35 WARNING @ Sat, 15 Jan 2022 22:22:40: Too few paired peaks (35) 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 22:22:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.05_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/SRX9067133/SRX9067133.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 22:22:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.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 22:22:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:22:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:22:44: 3000000 INFO @ Sat, 15 Jan 2022 22:22:54: 1000000 INFO @ Sat, 15 Jan 2022 22:22:55: 4000000 INFO @ Sat, 15 Jan 2022 22:23:05: 2000000 INFO @ Sat, 15 Jan 2022 22:23:05: 5000000 INFO @ Sat, 15 Jan 2022 22:23:10: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 22:23:10: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 22:23:10: #1 total tags in treatment: 1071588 INFO @ Sat, 15 Jan 2022 22:23:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:23:10: #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 22:23:11: #1 tags after filtering in treatment: 917406 INFO @ Sat, 15 Jan 2022 22:23:11: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 15 Jan 2022 22:23:11: #1 finished! INFO @ Sat, 15 Jan 2022 22:23:11: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:23:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:23:11: #2 number of paired peaks: 35 WARNING @ Sat, 15 Jan 2022 22:23:11: Too few paired peaks (35) 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 22:23:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.10_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/SRX9067133/SRX9067133.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:23:15: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:23:24: 4000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:23:33: 5000000 INFO @ Sat, 15 Jan 2022 22:23:38: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 22:23:38: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 22:23:38: #1 total tags in treatment: 1071588 INFO @ Sat, 15 Jan 2022 22:23:38: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:23:38: #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 22:23:38: #1 tags after filtering in treatment: 917406 INFO @ Sat, 15 Jan 2022 22:23:38: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 15 Jan 2022 22:23:38: #1 finished! INFO @ Sat, 15 Jan 2022 22:23:38: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:23:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:23:38: #2 number of paired peaks: 35 WARNING @ Sat, 15 Jan 2022 22:23:38: Too few paired peaks (35) 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 22:23:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.20_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/SRX9067133/SRX9067133.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067133/SRX9067133.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling