Job ID = 14520839 SRX = SRX8245308 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15003166 spots for SRR11684535/SRR11684535.sra Written 15003166 spots for SRR11684535/SRR11684535.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: 00:10:33 15003166 reads; of these: 15003166 (100.00%) were paired; of these: 6655201 (44.36%) aligned concordantly 0 times 6376974 (42.50%) aligned concordantly exactly 1 time 1970991 (13.14%) aligned concordantly >1 times ---- 6655201 pairs aligned concordantly 0 times; of these: 365295 (5.49%) aligned discordantly 1 time ---- 6289906 pairs aligned 0 times concordantly or discordantly; of these: 12579812 mates make up the pairs; of these: 7511080 (59.71%) aligned 0 times 3609136 (28.69%) aligned exactly 1 time 1459596 (11.60%) aligned >1 times 74.97% overall alignment rate Time searching: 00:10:33 Overall time: 00:10:33 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 12 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] 549683 / 8711246 = 0.0631 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 20:20:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.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 20:20:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:20:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:21:01: 1000000 INFO @ Sat, 15 Jan 2022 20:21:06: 2000000 INFO @ Sat, 15 Jan 2022 20:21:12: 3000000 INFO @ Sat, 15 Jan 2022 20:21:17: 4000000 INFO @ Sat, 15 Jan 2022 20:21:22: 5000000 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 20:21:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.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 20:21:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:21:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:21:28: 6000000 INFO @ Sat, 15 Jan 2022 20:21:31: 1000000 INFO @ Sat, 15 Jan 2022 20:21:33: 7000000 INFO @ Sat, 15 Jan 2022 20:21:35: 2000000 INFO @ Sat, 15 Jan 2022 20:21:38: 8000000 INFO @ Sat, 15 Jan 2022 20:21:40: 3000000 INFO @ Sat, 15 Jan 2022 20:21:44: 9000000 INFO @ Sat, 15 Jan 2022 20:21:44: 4000000 INFO @ Sat, 15 Jan 2022 20:21:49: 10000000 INFO @ Sat, 15 Jan 2022 20:21:49: 5000000 INFO @ Sat, 15 Jan 2022 20:21:53: 6000000 BedGraph に変換中... INFO @ Sat, 15 Jan 2022 20:21:54: 11000000 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 20:21:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.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 20:21:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:21:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:21:58: 7000000 INFO @ Sat, 15 Jan 2022 20:22:00: 12000000 INFO @ Sat, 15 Jan 2022 20:22:01: 1000000 INFO @ Sat, 15 Jan 2022 20:22:03: 8000000 INFO @ Sat, 15 Jan 2022 20:22:05: 13000000 INFO @ Sat, 15 Jan 2022 20:22:06: 2000000 INFO @ Sat, 15 Jan 2022 20:22:07: 9000000 INFO @ Sat, 15 Jan 2022 20:22:10: 14000000 INFO @ Sat, 15 Jan 2022 20:22:10: 3000000 INFO @ Sat, 15 Jan 2022 20:22:12: 10000000 INFO @ Sat, 15 Jan 2022 20:22:15: 4000000 INFO @ Sat, 15 Jan 2022 20:22:15: 15000000 INFO @ Sat, 15 Jan 2022 20:22:17: 11000000 INFO @ Sat, 15 Jan 2022 20:22:20: 5000000 INFO @ Sat, 15 Jan 2022 20:22:21: 16000000 INFO @ Sat, 15 Jan 2022 20:22:21: 12000000 INFO @ Sat, 15 Jan 2022 20:22:25: 6000000 INFO @ Sat, 15 Jan 2022 20:22:26: 13000000 INFO @ Sat, 15 Jan 2022 20:22:26: 17000000 INFO @ Sat, 15 Jan 2022 20:22:29: 7000000 INFO @ Sat, 15 Jan 2022 20:22:30: 14000000 INFO @ Sat, 15 Jan 2022 20:22:31: 18000000 INFO @ Sat, 15 Jan 2022 20:22:34: 8000000 INFO @ Sat, 15 Jan 2022 20:22:35: 15000000 INFO @ Sat, 15 Jan 2022 20:22:37: 19000000 INFO @ Sat, 15 Jan 2022 20:22:39: 9000000 INFO @ Sat, 15 Jan 2022 20:22:39: 16000000 INFO @ Sat, 15 Jan 2022 20:22:42: 20000000 INFO @ Sat, 15 Jan 2022 20:22:43: 10000000 INFO @ Sat, 15 Jan 2022 20:22:44: 17000000 INFO @ Sat, 15 Jan 2022 20:22:48: 21000000 INFO @ Sat, 15 Jan 2022 20:22:48: 11000000 INFO @ Sat, 15 Jan 2022 20:22:48: 18000000 INFO @ Sat, 15 Jan 2022 20:22:50: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:22:50: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:22:50: #1 total tags in treatment: 7805591 INFO @ Sat, 15 Jan 2022 20:22:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:22:50: #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 20:22:50: #1 tags after filtering in treatment: 5395117 INFO @ Sat, 15 Jan 2022 20:22:50: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 20:22:50: #1 finished! INFO @ Sat, 15 Jan 2022 20:22:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:22:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:22:50: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:22:50: 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 20:22:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.05_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/SRX8245308/SRX8245308.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:22:52: 12000000 INFO @ Sat, 15 Jan 2022 20:22:54: 19000000 INFO @ Sat, 15 Jan 2022 20:22:57: 13000000 INFO @ Sat, 15 Jan 2022 20:22:58: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:23:01: 14000000 INFO @ Sat, 15 Jan 2022 20:23:03: 21000000 INFO @ Sat, 15 Jan 2022 20:23:05: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:23:05: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:23:05: #1 total tags in treatment: 7805591 INFO @ Sat, 15 Jan 2022 20:23:05: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:23:05: #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 20:23:05: #1 tags after filtering in treatment: 5395117 INFO @ Sat, 15 Jan 2022 20:23:05: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 20:23:05: #1 finished! INFO @ Sat, 15 Jan 2022 20:23:05: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:23:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:23:05: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:23:05: 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 20:23:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.10_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 20:23:06: 15000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:23:10: 16000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:23:14: 17000000 INFO @ Sat, 15 Jan 2022 20:23:19: 18000000 INFO @ Sat, 15 Jan 2022 20:23:23: 19000000 INFO @ Sat, 15 Jan 2022 20:23:28: 20000000 INFO @ Sat, 15 Jan 2022 20:23:32: 21000000 INFO @ Sat, 15 Jan 2022 20:23:34: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:23:34: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:23:34: #1 total tags in treatment: 7805591 INFO @ Sat, 15 Jan 2022 20:23:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:23:34: #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 20:23:34: #1 tags after filtering in treatment: 5395117 INFO @ Sat, 15 Jan 2022 20:23:34: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 20:23:34: #1 finished! INFO @ Sat, 15 Jan 2022 20:23:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:23:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:23:34: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:23:34: 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 20:23:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 23 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245308/SRX8245308.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling