Job ID = 14520156 SRX = SRX10701696 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 10885836 spots for SRR14347846/SRR14347846.sra Written 10885836 spots for SRR14347846/SRR14347846.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: 00:04:39 10885836 reads; of these: 10885836 (100.00%) were paired; of these: 4013808 (36.87%) aligned concordantly 0 times 5706233 (52.42%) aligned concordantly exactly 1 time 1165795 (10.71%) aligned concordantly >1 times ---- 4013808 pairs aligned concordantly 0 times; of these: 18684 (0.47%) aligned discordantly 1 time ---- 3995124 pairs aligned 0 times concordantly or discordantly; of these: 7990248 mates make up the pairs; of these: 7944872 (99.43%) aligned 0 times 25958 (0.32%) aligned exactly 1 time 19418 (0.24%) aligned >1 times 63.51% overall alignment rate Time searching: 00:04:39 Overall time: 00:04:39 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] 1282419 / 6888025 = 0.1862 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 18:35:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.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 18:35:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:35:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:35:30: 1000000 INFO @ Sat, 15 Jan 2022 18:35:34: 2000000 INFO @ Sat, 15 Jan 2022 18:35:38: 3000000 INFO @ Sat, 15 Jan 2022 18:35:42: 4000000 INFO @ Sat, 15 Jan 2022 18:35:46: 5000000 INFO @ Sat, 15 Jan 2022 18:35:50: 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 18:35:54: 7000000 INFO @ Sat, 15 Jan 2022 18:35:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.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 18:35:55: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:35:55: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:35:58: 8000000 INFO @ Sat, 15 Jan 2022 18:35:59: 1000000 INFO @ Sat, 15 Jan 2022 18:36:02: 9000000 INFO @ Sat, 15 Jan 2022 18:36:04: 2000000 INFO @ Sat, 15 Jan 2022 18:36:06: 10000000 INFO @ Sat, 15 Jan 2022 18:36:08: 3000000 INFO @ Sat, 15 Jan 2022 18:36:09: 11000000 INFO @ Sat, 15 Jan 2022 18:36:11: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 18:36:11: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 18:36:11: #1 total tags in treatment: 5590210 INFO @ Sat, 15 Jan 2022 18:36:11: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:36:11: #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 18:36:11: #1 tags after filtering in treatment: 3528792 INFO @ Sat, 15 Jan 2022 18:36:11: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 18:36:11: #1 finished! INFO @ Sat, 15 Jan 2022 18:36:11: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:36:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:36:11: #2 number of paired peaks: 10 WARNING @ Sat, 15 Jan 2022 18:36:11: Too few paired peaks (10) 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 18:36:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.05_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/SRX10701696/SRX10701696.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:36:12: 4000000 INFO @ Sat, 15 Jan 2022 18:36:16: 5000000 INFO @ Sat, 15 Jan 2022 18:36:20: 6000000 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 18:36:24: 7000000 INFO @ Sat, 15 Jan 2022 18:36:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.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 18:36:25: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:36:25: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:36:28: 8000000 INFO @ Sat, 15 Jan 2022 18:36:29: 1000000 INFO @ Sat, 15 Jan 2022 18:36:32: 9000000 INFO @ Sat, 15 Jan 2022 18:36:33: 2000000 INFO @ Sat, 15 Jan 2022 18:36:36: 10000000 INFO @ Sat, 15 Jan 2022 18:36:37: 3000000 INFO @ Sat, 15 Jan 2022 18:36:40: 11000000 INFO @ Sat, 15 Jan 2022 18:36:41: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 18:36:41: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 18:36:41: #1 total tags in treatment: 5590210 INFO @ Sat, 15 Jan 2022 18:36:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:36:41: #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 18:36:41: #1 tags after filtering in treatment: 3528792 INFO @ Sat, 15 Jan 2022 18:36:41: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 18:36:41: #1 finished! INFO @ Sat, 15 Jan 2022 18:36:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:36:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:36:41: #2 number of paired peaks: 10 WARNING @ Sat, 15 Jan 2022 18:36:41: Too few paired peaks (10) 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 18:36:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.10_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 18:36:41: 4000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:36:45: 5000000 INFO @ Sat, 15 Jan 2022 18:36:49: 6000000 INFO @ Sat, 15 Jan 2022 18:36:53: 7000000 INFO @ Sat, 15 Jan 2022 18:36:57: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:37:01: 9000000 INFO @ Sat, 15 Jan 2022 18:37:05: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:37:09: 11000000 INFO @ Sat, 15 Jan 2022 18:37:10: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 18:37:10: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 18:37:10: #1 total tags in treatment: 5590210 INFO @ Sat, 15 Jan 2022 18:37:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:37:10: #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 18:37:10: #1 tags after filtering in treatment: 3528792 INFO @ Sat, 15 Jan 2022 18:37:10: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 18:37:10: #1 finished! INFO @ Sat, 15 Jan 2022 18:37:10: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:37:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:37:11: #2 number of paired peaks: 10 WARNING @ Sat, 15 Jan 2022 18:37:11: Too few paired peaks (10) 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 18:37:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.20_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/SRX10701696/SRX10701696.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10701696/SRX10701696.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling