Job ID = 14521666 SRX = SRX9399027 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6248652 spots for SRR12935284/SRR12935284.sra Written 6248652 spots for SRR12935284/SRR12935284.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: 00:02:38 6248652 reads; of these: 6248652 (100.00%) were paired; of these: 523840 (8.38%) aligned concordantly 0 times 5080867 (81.31%) aligned concordantly exactly 1 time 643945 (10.31%) aligned concordantly >1 times ---- 523840 pairs aligned concordantly 0 times; of these: 156628 (29.90%) aligned discordantly 1 time ---- 367212 pairs aligned 0 times concordantly or discordantly; of these: 734424 mates make up the pairs; of these: 466528 (63.52%) aligned 0 times 204341 (27.82%) aligned exactly 1 time 63555 (8.65%) aligned >1 times 96.27% overall alignment rate Time searching: 00:02:38 Overall time: 00:02:38 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_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] 496999 / 5803707 = 0.0856 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 21:27:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.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 21:27:22: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:27:22: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:27:27: 1000000 INFO @ Sat, 15 Jan 2022 21:27:31: 2000000 INFO @ Sat, 15 Jan 2022 21:27:36: 3000000 INFO @ Sat, 15 Jan 2022 21:27:41: 4000000 INFO @ Sat, 15 Jan 2022 21:27:45: 5000000 INFO @ Sat, 15 Jan 2022 21:27:50: 6000000 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 21:27:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.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 21:27:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:27:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:27:55: 7000000 INFO @ Sat, 15 Jan 2022 21:27:57: 1000000 INFO @ Sat, 15 Jan 2022 21:28:00: 8000000 INFO @ Sat, 15 Jan 2022 21:28:02: 2000000 INFO @ Sat, 15 Jan 2022 21:28:04: 9000000 INFO @ Sat, 15 Jan 2022 21:28:07: 3000000 INFO @ Sat, 15 Jan 2022 21:28:09: 10000000 INFO @ Sat, 15 Jan 2022 21:28:12: 4000000 INFO @ Sat, 15 Jan 2022 21:28:14: 11000000 INFO @ Sat, 15 Jan 2022 21:28:14: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 21:28:14: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 21:28:14: #1 total tags in treatment: 5229423 INFO @ Sat, 15 Jan 2022 21:28:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:28:14: #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 21:28:14: #1 tags after filtering in treatment: 3446944 INFO @ Sat, 15 Jan 2022 21:28:14: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:28:14: #1 finished! INFO @ Sat, 15 Jan 2022 21:28:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:28:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:28:14: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:28:14: 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 21:28:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.05_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/SRX9399027/SRX9399027.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:28:16: 5000000 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 21:28:21: 6000000 INFO @ Sat, 15 Jan 2022 21:28:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.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 21:28:22: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:28:22: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:28:26: 7000000 INFO @ Sat, 15 Jan 2022 21:28:27: 1000000 INFO @ Sat, 15 Jan 2022 21:28:31: 8000000 INFO @ Sat, 15 Jan 2022 21:28:32: 2000000 INFO @ Sat, 15 Jan 2022 21:28:35: 9000000 INFO @ Sat, 15 Jan 2022 21:28:37: 3000000 INFO @ Sat, 15 Jan 2022 21:28:40: 10000000 INFO @ Sat, 15 Jan 2022 21:28:42: 4000000 INFO @ Sat, 15 Jan 2022 21:28:45: 11000000 INFO @ Sat, 15 Jan 2022 21:28:45: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 21:28:45: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 21:28:45: #1 total tags in treatment: 5229423 INFO @ Sat, 15 Jan 2022 21:28:45: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:28:45: #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 21:28:45: #1 tags after filtering in treatment: 3446944 INFO @ Sat, 15 Jan 2022 21:28:45: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:28:45: #1 finished! INFO @ Sat, 15 Jan 2022 21:28:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:28:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:28:46: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:28:46: 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 21:28:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.10_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/SRX9399027/SRX9399027.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:28:46: 5000000 INFO @ Sat, 15 Jan 2022 21:28:51: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:28:56: 7000000 INFO @ Sat, 15 Jan 2022 21:29:00: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:29:05: 9000000 INFO @ Sat, 15 Jan 2022 21:29:10: 10000000 INFO @ Sat, 15 Jan 2022 21:29:14: 11000000 INFO @ Sat, 15 Jan 2022 21:29:15: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 21:29:15: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 21:29:15: #1 total tags in treatment: 5229423 INFO @ Sat, 15 Jan 2022 21:29:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:29:15: #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 21:29:15: #1 tags after filtering in treatment: 3446944 INFO @ Sat, 15 Jan 2022 21:29:15: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:29:15: #1 finished! INFO @ Sat, 15 Jan 2022 21:29:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:29:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:29:15: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:29:15: 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 @ Sat, 15 Jan 2022 21:29:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.20_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/SRX9399027/SRX9399027.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399027/SRX9399027.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling