Job ID = 7106854 SRX = SRX6911536 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 37831253 spots for SRR10191147/SRR10191147.sra Written 37831253 spots for SRR10191147/SRR10191147.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: 00:14:56 37831253 reads; of these: 37831253 (100.00%) were paired; of these: 30927202 (81.75%) aligned concordantly 0 times 4764342 (12.59%) aligned concordantly exactly 1 time 2139709 (5.66%) aligned concordantly >1 times ---- 30927202 pairs aligned concordantly 0 times; of these: 688648 (2.23%) aligned discordantly 1 time ---- 30238554 pairs aligned 0 times concordantly or discordantly; of these: 60477108 mates make up the pairs; of these: 59608488 (98.56%) aligned 0 times 303112 (0.50%) aligned exactly 1 time 565508 (0.94%) aligned >1 times 21.22% overall alignment rate Time searching: 00:14:56 Overall time: 00:14:56 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] 2493527 / 7591630 = 0.3285 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:08:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.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 @ Wed, 22 Jul 2020 13:08:58: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:08:58: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:09:04: 1000000 INFO @ Wed, 22 Jul 2020 13:09:10: 2000000 INFO @ Wed, 22 Jul 2020 13:09:16: 3000000 INFO @ Wed, 22 Jul 2020 13:09:22: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:09:28: 5000000 INFO @ Wed, 22 Jul 2020 13:09:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.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 @ Wed, 22 Jul 2020 13:09:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:09:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:09:35: 6000000 INFO @ Wed, 22 Jul 2020 13:09:35: 1000000 INFO @ Wed, 22 Jul 2020 13:09:41: 7000000 INFO @ Wed, 22 Jul 2020 13:09:42: 2000000 INFO @ Wed, 22 Jul 2020 13:09:48: 8000000 INFO @ Wed, 22 Jul 2020 13:09:48: 3000000 INFO @ Wed, 22 Jul 2020 13:09:54: 9000000 INFO @ Wed, 22 Jul 2020 13:09:55: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:09:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.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 @ Wed, 22 Jul 2020 13:09:58: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:09:58: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:10:01: 10000000 INFO @ Wed, 22 Jul 2020 13:10:01: 5000000 INFO @ Wed, 22 Jul 2020 13:10:05: 1000000 INFO @ Wed, 22 Jul 2020 13:10:08: 11000000 INFO @ Wed, 22 Jul 2020 13:10:08: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:10:08: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:10:08: #1 total tags in treatment: 4518760 INFO @ Wed, 22 Jul 2020 13:10:08: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:10:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:10:08: #1 tags after filtering in treatment: 2943146 INFO @ Wed, 22 Jul 2020 13:10:08: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 13:10:08: #1 finished! INFO @ Wed, 22 Jul 2020 13:10:08: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:10:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:10:08: #2 number of paired peaks: 71 WARNING @ Wed, 22 Jul 2020 13:10:08: Too few paired peaks (71) 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 @ Wed, 22 Jul 2020 13:10:08: Process for pairing-model is terminated! INFO @ Wed, 22 Jul 2020 13:10:08: 6000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.05_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/SRX6911536/SRX6911536.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:10:12: 2000000 INFO @ Wed, 22 Jul 2020 13:10:15: 7000000 INFO @ Wed, 22 Jul 2020 13:10:20: 3000000 INFO @ Wed, 22 Jul 2020 13:10:21: 8000000 INFO @ Wed, 22 Jul 2020 13:10:28: 4000000 INFO @ Wed, 22 Jul 2020 13:10:28: 9000000 INFO @ Wed, 22 Jul 2020 13:10:35: 10000000 INFO @ Wed, 22 Jul 2020 13:10:36: 5000000 INFO @ Wed, 22 Jul 2020 13:10:41: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:10:42: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:10:42: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:10:42: #1 total tags in treatment: 4518760 INFO @ Wed, 22 Jul 2020 13:10:42: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:10:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:10:42: #1 tags after filtering in treatment: 2943146 INFO @ Wed, 22 Jul 2020 13:10:42: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 13:10:42: #1 finished! INFO @ Wed, 22 Jul 2020 13:10:42: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:10:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:10:42: #2 number of paired peaks: 71 WARNING @ Wed, 22 Jul 2020 13:10:42: Too few paired peaks (71) 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 @ Wed, 22 Jul 2020 13:10:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.10_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/SRX6911536/SRX6911536.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:10:43: 6000000 INFO @ Wed, 22 Jul 2020 13:10:50: 7000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:10:57: 8000000 INFO @ Wed, 22 Jul 2020 13:11:04: 9000000 INFO @ Wed, 22 Jul 2020 13:11:11: 10000000 INFO @ Wed, 22 Jul 2020 13:11:18: 11000000 INFO @ Wed, 22 Jul 2020 13:11:19: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:11:19: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:11:19: #1 total tags in treatment: 4518760 INFO @ Wed, 22 Jul 2020 13:11:19: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:11:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:11:19: #1 tags after filtering in treatment: 2943146 INFO @ Wed, 22 Jul 2020 13:11:19: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 13:11:19: #1 finished! INFO @ Wed, 22 Jul 2020 13:11:19: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:11:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:11:19: #2 number of paired peaks: 71 WARNING @ Wed, 22 Jul 2020 13:11:19: Too few paired peaks (71) 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 @ Wed, 22 Jul 2020 13:11:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.20_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/SRX6911536/SRX6911536.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911536/SRX6911536.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling