Job ID = 12531573 SRX = SRX3353406 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13922805 spots for SRR6246286/SRR6246286.sra Written 13922805 spots for SRR6246286/SRR6246286.sra Read 12263978 spots for SRR6246287/SRR6246287.sra Written 12263978 spots for SRR6246287/SRR6246287.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: 00:19:27 26186783 reads; of these: 26186783 (100.00%) were paired; of these: 3343103 (12.77%) aligned concordantly 0 times 11239671 (42.92%) aligned concordantly exactly 1 time 11604009 (44.31%) aligned concordantly >1 times ---- 3343103 pairs aligned concordantly 0 times; of these: 910826 (27.24%) aligned discordantly 1 time ---- 2432277 pairs aligned 0 times concordantly or discordantly; of these: 4864554 mates make up the pairs; of these: 2795347 (57.46%) aligned 0 times 190929 (3.92%) aligned exactly 1 time 1878278 (38.61%) aligned >1 times 94.66% overall alignment rate Time searching: 00:19:27 Overall time: 00:19:27 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 24 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] 12051422 / 23614924 = 0.5103 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 08:52:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.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, 17 Apr 2021 08:52:57: #1 read tag files... INFO @ Sat, 17 Apr 2021 08:52:57: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 08:53:03: 1000000 INFO @ Sat, 17 Apr 2021 08:53:09: 2000000 INFO @ Sat, 17 Apr 2021 08:53:15: 3000000 INFO @ Sat, 17 Apr 2021 08:53:21: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 08:53:26: 5000000 INFO @ Sat, 17 Apr 2021 08:53:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.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, 17 Apr 2021 08:53:27: #1 read tag files... INFO @ Sat, 17 Apr 2021 08:53:27: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 08:53:33: 6000000 INFO @ Sat, 17 Apr 2021 08:53:34: 1000000 INFO @ Sat, 17 Apr 2021 08:53:39: 7000000 INFO @ Sat, 17 Apr 2021 08:53:40: 2000000 INFO @ Sat, 17 Apr 2021 08:53:46: 8000000 INFO @ Sat, 17 Apr 2021 08:53:47: 3000000 INFO @ Sat, 17 Apr 2021 08:53:52: 9000000 INFO @ Sat, 17 Apr 2021 08:53:54: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 08:53:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.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, 17 Apr 2021 08:53:57: #1 read tag files... INFO @ Sat, 17 Apr 2021 08:53:57: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 08:53:59: 10000000 INFO @ Sat, 17 Apr 2021 08:54:00: 5000000 INFO @ Sat, 17 Apr 2021 08:54:04: 1000000 INFO @ Sat, 17 Apr 2021 08:54:05: 11000000 INFO @ Sat, 17 Apr 2021 08:54:07: 6000000 INFO @ Sat, 17 Apr 2021 08:54:10: 2000000 INFO @ Sat, 17 Apr 2021 08:54:12: 12000000 INFO @ Sat, 17 Apr 2021 08:54:13: 7000000 INFO @ Sat, 17 Apr 2021 08:54:17: 3000000 INFO @ Sat, 17 Apr 2021 08:54:18: 13000000 INFO @ Sat, 17 Apr 2021 08:54:20: 8000000 INFO @ Sat, 17 Apr 2021 08:54:24: 4000000 INFO @ Sat, 17 Apr 2021 08:54:25: 14000000 INFO @ Sat, 17 Apr 2021 08:54:27: 9000000 INFO @ Sat, 17 Apr 2021 08:54:30: 5000000 INFO @ Sat, 17 Apr 2021 08:54:31: 15000000 INFO @ Sat, 17 Apr 2021 08:54:34: 10000000 INFO @ Sat, 17 Apr 2021 08:54:37: 6000000 INFO @ Sat, 17 Apr 2021 08:54:38: 16000000 INFO @ Sat, 17 Apr 2021 08:54:40: 11000000 INFO @ Sat, 17 Apr 2021 08:54:43: 7000000 INFO @ Sat, 17 Apr 2021 08:54:44: 17000000 INFO @ Sat, 17 Apr 2021 08:54:47: 12000000 INFO @ Sat, 17 Apr 2021 08:54:50: 8000000 INFO @ Sat, 17 Apr 2021 08:54:50: 18000000 INFO @ Sat, 17 Apr 2021 08:54:54: 13000000 INFO @ Sat, 17 Apr 2021 08:54:56: 9000000 INFO @ Sat, 17 Apr 2021 08:54:57: 19000000 INFO @ Sat, 17 Apr 2021 08:55:00: 14000000 INFO @ Sat, 17 Apr 2021 08:55:03: 10000000 INFO @ Sat, 17 Apr 2021 08:55:04: 20000000 INFO @ Sat, 17 Apr 2021 08:55:06: 15000000 INFO @ Sat, 17 Apr 2021 08:55:10: 11000000 INFO @ Sat, 17 Apr 2021 08:55:10: 21000000 INFO @ Sat, 17 Apr 2021 08:55:13: 16000000 INFO @ Sat, 17 Apr 2021 08:55:16: 12000000 INFO @ Sat, 17 Apr 2021 08:55:17: 22000000 INFO @ Sat, 17 Apr 2021 08:55:19: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 08:55:23: 13000000 INFO @ Sat, 17 Apr 2021 08:55:24: 23000000 INFO @ Sat, 17 Apr 2021 08:55:26: 18000000 INFO @ Sat, 17 Apr 2021 08:55:30: 14000000 INFO @ Sat, 17 Apr 2021 08:55:30: 24000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 08:55:33: 19000000 INFO @ Sat, 17 Apr 2021 08:55:36: 15000000 INFO @ Sat, 17 Apr 2021 08:55:37: 25000000 INFO @ Sat, 17 Apr 2021 08:55:39: 20000000 INFO @ Sat, 17 Apr 2021 08:55:40: #1 tag size is determined as 51 bps INFO @ Sat, 17 Apr 2021 08:55:40: #1 tag size = 51 INFO @ Sat, 17 Apr 2021 08:55:40: #1 total tags in treatment: 10945177 INFO @ Sat, 17 Apr 2021 08:55:40: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 08:55:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 08:55:41: #1 tags after filtering in treatment: 4021201 INFO @ Sat, 17 Apr 2021 08:55:41: #1 Redundant rate of treatment: 0.63 INFO @ Sat, 17 Apr 2021 08:55:41: #1 finished! INFO @ Sat, 17 Apr 2021 08:55:41: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 08:55:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 08:55:41: #2 number of paired peaks: 30 WARNING @ Sat, 17 Apr 2021 08:55:41: Too few paired peaks (30) 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, 17 Apr 2021 08:55:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.05_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/SRX3353406/SRX3353406.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 08:55:43: 16000000 INFO @ Sat, 17 Apr 2021 08:55:46: 21000000 INFO @ Sat, 17 Apr 2021 08:55:49: 17000000 INFO @ Sat, 17 Apr 2021 08:55:52: 22000000 INFO @ Sat, 17 Apr 2021 08:55:55: 18000000 INFO @ Sat, 17 Apr 2021 08:55:59: 23000000 INFO @ Sat, 17 Apr 2021 08:56:02: 19000000 INFO @ Sat, 17 Apr 2021 08:56:05: 24000000 INFO @ Sat, 17 Apr 2021 08:56:09: 20000000 INFO @ Sat, 17 Apr 2021 08:56:12: 25000000 INFO @ Sat, 17 Apr 2021 08:56:15: #1 tag size is determined as 51 bps INFO @ Sat, 17 Apr 2021 08:56:15: #1 tag size = 51 INFO @ Sat, 17 Apr 2021 08:56:15: #1 total tags in treatment: 10945177 INFO @ Sat, 17 Apr 2021 08:56:15: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 08:56:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 08:56:15: #1 tags after filtering in treatment: 4021201 INFO @ Sat, 17 Apr 2021 08:56:15: #1 Redundant rate of treatment: 0.63 INFO @ Sat, 17 Apr 2021 08:56:15: #1 finished! INFO @ Sat, 17 Apr 2021 08:56:15: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 08:56:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 08:56:15: 21000000 INFO @ Sat, 17 Apr 2021 08:56:15: #2 number of paired peaks: 30 WARNING @ Sat, 17 Apr 2021 08:56:15: Too few paired peaks (30) 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, 17 Apr 2021 08:56:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 08:56:21: 22000000 INFO @ Sat, 17 Apr 2021 08:56:27: 23000000 INFO @ Sat, 17 Apr 2021 08:56:33: 24000000 INFO @ Sat, 17 Apr 2021 08:56:39: 25000000 INFO @ Sat, 17 Apr 2021 08:56:41: #1 tag size is determined as 51 bps INFO @ Sat, 17 Apr 2021 08:56:41: #1 tag size = 51 INFO @ Sat, 17 Apr 2021 08:56:41: #1 total tags in treatment: 10945177 INFO @ Sat, 17 Apr 2021 08:56:41: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 08:56:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 08:56:42: #1 tags after filtering in treatment: 4021201 INFO @ Sat, 17 Apr 2021 08:56:42: #1 Redundant rate of treatment: 0.63 INFO @ Sat, 17 Apr 2021 08:56:42: #1 finished! INFO @ Sat, 17 Apr 2021 08:56:42: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 08:56:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 08:56:42: #2 number of paired peaks: 30 WARNING @ Sat, 17 Apr 2021 08:56:42: Too few paired peaks (30) 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, 17 Apr 2021 08:56:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.20_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/SRX3353406/SRX3353406.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3353406/SRX3353406.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling