Job ID = 14520957 SRX = SRX8245333 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 17249307 spots for SRR11684528/SRR11684528.sra Written 17249307 spots for SRR11684528/SRR11684528.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: 00:08:17 17249307 reads; of these: 17249307 (100.00%) were paired; of these: 11677235 (67.70%) aligned concordantly 0 times 4854204 (28.14%) aligned concordantly exactly 1 time 717868 (4.16%) aligned concordantly >1 times ---- 11677235 pairs aligned concordantly 0 times; of these: 176239 (1.51%) aligned discordantly 1 time ---- 11500996 pairs aligned 0 times concordantly or discordantly; of these: 23001992 mates make up the pairs; of these: 11730779 (51.00%) aligned 0 times 9687320 (42.12%) aligned exactly 1 time 1583893 (6.89%) aligned >1 times 66.00% overall alignment rate Time searching: 00:08:17 Overall time: 00:08:17 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] 173848 / 5747656 = 0.0302 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 20:26:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.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 20:26:35: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:26:35: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:26:40: 1000000 INFO @ Sat, 15 Jan 2022 20:26:45: 2000000 INFO @ Sat, 15 Jan 2022 20:26:51: 3000000 INFO @ Sat, 15 Jan 2022 20:26:56: 4000000 INFO @ Sat, 15 Jan 2022 20:27:01: 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 20:27:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.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 20:27:05: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:27:05: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:27:07: 6000000 INFO @ Sat, 15 Jan 2022 20:27:10: 1000000 INFO @ Sat, 15 Jan 2022 20:27:13: 7000000 INFO @ Sat, 15 Jan 2022 20:27:16: 2000000 INFO @ Sat, 15 Jan 2022 20:27:19: 8000000 INFO @ Sat, 15 Jan 2022 20:27:22: 3000000 INFO @ Sat, 15 Jan 2022 20:27:26: 9000000 INFO @ Sat, 15 Jan 2022 20:27:28: 4000000 INFO @ Sat, 15 Jan 2022 20:27:32: 10000000 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 20:27:33: 5000000 INFO @ Sat, 15 Jan 2022 20:27:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.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 20:27:35: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:27:35: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:27:38: 11000000 INFO @ Sat, 15 Jan 2022 20:27:39: 6000000 INFO @ Sat, 15 Jan 2022 20:27:40: 1000000 INFO @ Sat, 15 Jan 2022 20:27:44: 12000000 INFO @ Sat, 15 Jan 2022 20:27:44: 7000000 INFO @ Sat, 15 Jan 2022 20:27:46: 2000000 INFO @ Sat, 15 Jan 2022 20:27:50: 8000000 INFO @ Sat, 15 Jan 2022 20:27:50: 13000000 INFO @ Sat, 15 Jan 2022 20:27:52: 3000000 INFO @ Sat, 15 Jan 2022 20:27:55: 9000000 INFO @ Sat, 15 Jan 2022 20:27:56: 14000000 INFO @ Sat, 15 Jan 2022 20:27:58: 4000000 INFO @ Sat, 15 Jan 2022 20:28:01: 10000000 INFO @ Sat, 15 Jan 2022 20:28:02: 15000000 INFO @ Sat, 15 Jan 2022 20:28:03: 5000000 INFO @ Sat, 15 Jan 2022 20:28:07: 11000000 INFO @ Sat, 15 Jan 2022 20:28:08: 16000000 INFO @ Sat, 15 Jan 2022 20:28:09: 6000000 INFO @ Sat, 15 Jan 2022 20:28:12: 12000000 INFO @ Sat, 15 Jan 2022 20:28:14: 7000000 INFO @ Sat, 15 Jan 2022 20:28:15: 17000000 INFO @ Sat, 15 Jan 2022 20:28:18: 13000000 INFO @ Sat, 15 Jan 2022 20:28:20: 8000000 INFO @ Sat, 15 Jan 2022 20:28:21: 18000000 INFO @ Sat, 15 Jan 2022 20:28:24: 14000000 INFO @ Sat, 15 Jan 2022 20:28:25: 9000000 INFO @ Sat, 15 Jan 2022 20:28:27: 19000000 INFO @ Sat, 15 Jan 2022 20:28:29: 15000000 INFO @ Sat, 15 Jan 2022 20:28:31: 10000000 INFO @ Sat, 15 Jan 2022 20:28:33: 20000000 INFO @ Sat, 15 Jan 2022 20:28:35: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:28:37: 11000000 INFO @ Sat, 15 Jan 2022 20:28:39: 21000000 INFO @ Sat, 15 Jan 2022 20:28:40: 17000000 INFO @ Sat, 15 Jan 2022 20:28:42: 12000000 INFO @ Sat, 15 Jan 2022 20:28:45: 22000000 INFO @ Sat, 15 Jan 2022 20:28:46: 18000000 INFO @ Sat, 15 Jan 2022 20:28:48: 13000000 INFO @ Sat, 15 Jan 2022 20:28:48: #1 tag size is determined as 26 bps INFO @ Sat, 15 Jan 2022 20:28:48: #1 tag size = 26 INFO @ Sat, 15 Jan 2022 20:28:48: #1 total tags in treatment: 5400202 INFO @ Sat, 15 Jan 2022 20:28:48: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:28:48: #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 20:28:48: #1 tags after filtering in treatment: 4363424 INFO @ Sat, 15 Jan 2022 20:28:48: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 20:28:48: #1 finished! INFO @ Sat, 15 Jan 2022 20:28:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:28:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:28:48: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:28:48: Too few paired peaks (27) 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 20:28:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.05_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/SRX8245333/SRX8245333.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:28:51: 19000000 INFO @ Sat, 15 Jan 2022 20:28:53: 14000000 INFO @ Sat, 15 Jan 2022 20:28:57: 20000000 INFO @ Sat, 15 Jan 2022 20:28:58: 15000000 INFO @ Sat, 15 Jan 2022 20:29:02: 21000000 INFO @ Sat, 15 Jan 2022 20:29:03: 16000000 INFO @ Sat, 15 Jan 2022 20:29:08: 22000000 INFO @ Sat, 15 Jan 2022 20:29:09: 17000000 INFO @ Sat, 15 Jan 2022 20:29:10: #1 tag size is determined as 26 bps INFO @ Sat, 15 Jan 2022 20:29:10: #1 tag size = 26 INFO @ Sat, 15 Jan 2022 20:29:10: #1 total tags in treatment: 5400202 INFO @ Sat, 15 Jan 2022 20:29:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:29:10: #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 20:29:10: #1 tags after filtering in treatment: 4363424 INFO @ Sat, 15 Jan 2022 20:29:10: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 20:29:10: #1 finished! INFO @ Sat, 15 Jan 2022 20:29:10: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:29:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:29:10: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:29:10: Too few paired peaks (27) 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 20:29:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.10_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/SRX8245333/SRX8245333.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:29:14: 18000000 INFO @ Sat, 15 Jan 2022 20:29:19: 19000000 INFO @ Sat, 15 Jan 2022 20:29:23: 20000000 INFO @ Sat, 15 Jan 2022 20:29:28: 21000000 INFO @ Sat, 15 Jan 2022 20:29:32: 22000000 INFO @ Sat, 15 Jan 2022 20:29:34: #1 tag size is determined as 26 bps INFO @ Sat, 15 Jan 2022 20:29:34: #1 tag size = 26 INFO @ Sat, 15 Jan 2022 20:29:34: #1 total tags in treatment: 5400202 INFO @ Sat, 15 Jan 2022 20:29:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:29:34: #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 20:29:34: #1 tags after filtering in treatment: 4363424 INFO @ Sat, 15 Jan 2022 20:29:34: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 20:29:34: #1 finished! INFO @ Sat, 15 Jan 2022 20:29:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:29:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:29:35: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:29:35: Too few paired peaks (27) 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 20:29:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.20_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/SRX8245333/SRX8245333.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245333/SRX8245333.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling