Job ID = 14520244 SRX = SRX9346316 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6597383 spots for SRR12880354/SRR12880354.sra Written 6597383 spots for SRR12880354/SRR12880354.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: 00:08:26 6597383 reads; of these: 6597383 (100.00%) were paired; of these: 465476 (7.06%) aligned concordantly 0 times 5266908 (79.83%) aligned concordantly exactly 1 time 864999 (13.11%) aligned concordantly >1 times ---- 465476 pairs aligned concordantly 0 times; of these: 40062 (8.61%) aligned discordantly 1 time ---- 425414 pairs aligned 0 times concordantly or discordantly; of these: 850828 mates make up the pairs; of these: 767360 (90.19%) aligned 0 times 60046 (7.06%) aligned exactly 1 time 23422 (2.75%) aligned >1 times 94.18% overall alignment rate Time searching: 00:08:26 Overall time: 00:08:26 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] 1521013 / 6137149 = 0.2478 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 19:01:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.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 19:01:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:01:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:01:22: 1000000 INFO @ Sat, 15 Jan 2022 19:01:30: 2000000 INFO @ Sat, 15 Jan 2022 19:01:37: 3000000 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 19:01:45: 4000000 INFO @ Sat, 15 Jan 2022 19:01:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.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 19:01:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:01:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:01:52: 5000000 INFO @ Sat, 15 Jan 2022 19:01:55: 1000000 INFO @ Sat, 15 Jan 2022 19:02:00: 6000000 INFO @ Sat, 15 Jan 2022 19:02:06: 2000000 INFO @ Sat, 15 Jan 2022 19:02:08: 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 19:02:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.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 19:02:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:02:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:02:16: 8000000 INFO @ Sat, 15 Jan 2022 19:02:16: 3000000 INFO @ Sat, 15 Jan 2022 19:02:23: 9000000 INFO @ Sat, 15 Jan 2022 19:02:26: 1000000 INFO @ Sat, 15 Jan 2022 19:02:26: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:02:26: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:02:26: #1 total tags in treatment: 4613168 INFO @ Sat, 15 Jan 2022 19:02:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:02:26: #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 19:02:27: #1 tags after filtering in treatment: 3127891 INFO @ Sat, 15 Jan 2022 19:02:27: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 19:02:27: #1 finished! INFO @ Sat, 15 Jan 2022 19:02:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:02:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:02:27: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 19:02:27: Too few paired peaks (34) 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 19:02:27: Process for pairing-model is terminated! INFO @ Sat, 15 Jan 2022 19:02:27: 4000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.05_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/SRX9346316/SRX9346316.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:02:37: 2000000 INFO @ Sat, 15 Jan 2022 19:02:38: 5000000 INFO @ Sat, 15 Jan 2022 19:02:48: 3000000 INFO @ Sat, 15 Jan 2022 19:02:49: 6000000 INFO @ Sat, 15 Jan 2022 19:02:59: 4000000 INFO @ Sat, 15 Jan 2022 19:03:00: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:03:10: 5000000 INFO @ Sat, 15 Jan 2022 19:03:11: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:03:21: 6000000 INFO @ Sat, 15 Jan 2022 19:03:22: 9000000 INFO @ Sat, 15 Jan 2022 19:03:26: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:03:26: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:03:26: #1 total tags in treatment: 4613168 INFO @ Sat, 15 Jan 2022 19:03:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:03:26: #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 19:03:26: #1 tags after filtering in treatment: 3127891 INFO @ Sat, 15 Jan 2022 19:03:26: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 19:03:26: #1 finished! INFO @ Sat, 15 Jan 2022 19:03:26: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:03:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:03:26: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 19:03:26: Too few paired peaks (34) 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 19:03:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.10_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/SRX9346316/SRX9346316.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:03:31: 7000000 INFO @ Sat, 15 Jan 2022 19:03:41: 8000000 INFO @ Sat, 15 Jan 2022 19:03:50: 9000000 INFO @ Sat, 15 Jan 2022 19:03:54: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:03:54: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:03:54: #1 total tags in treatment: 4613168 INFO @ Sat, 15 Jan 2022 19:03:54: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:03:54: #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 19:03:54: #1 tags after filtering in treatment: 3127891 INFO @ Sat, 15 Jan 2022 19:03:54: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 19:03:54: #1 finished! INFO @ Sat, 15 Jan 2022 19:03:54: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:03:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:03:54: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 19:03:54: Too few paired peaks (34) 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 19:03:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.20_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/SRX9346316/SRX9346316.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346316/SRX9346316.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling