Job ID = 14521644 SRX = SRX9399136 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8804224 spots for SRR12935417/SRR12935417.sra Written 8804224 spots for SRR12935417/SRR12935417.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: 00:03:46 8804224 reads; of these: 8804224 (100.00%) were paired; of these: 756820 (8.60%) aligned concordantly 0 times 7307024 (82.99%) aligned concordantly exactly 1 time 740380 (8.41%) aligned concordantly >1 times ---- 756820 pairs aligned concordantly 0 times; of these: 116051 (15.33%) aligned discordantly 1 time ---- 640769 pairs aligned 0 times concordantly or discordantly; of these: 1281538 mates make up the pairs; of these: 990597 (77.30%) aligned 0 times 235639 (18.39%) aligned exactly 1 time 55302 (4.32%) aligned >1 times 94.37% overall alignment rate Time searching: 00:03:46 Overall time: 00:03:46 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] 1294367 / 8150042 = 0.1588 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 21:28:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.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 21:28:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:28:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:28:58: 1000000 INFO @ Sat, 15 Jan 2022 21:29:05: 2000000 INFO @ Sat, 15 Jan 2022 21:29:11: 3000000 INFO @ Sat, 15 Jan 2022 21:29:18: 4000000 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 21:29:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.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 21:29:22: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:29:22: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:29:25: 5000000 INFO @ Sat, 15 Jan 2022 21:29:28: 1000000 INFO @ Sat, 15 Jan 2022 21:29:32: 6000000 INFO @ Sat, 15 Jan 2022 21:29:35: 2000000 INFO @ Sat, 15 Jan 2022 21:29:39: 7000000 INFO @ Sat, 15 Jan 2022 21:29:41: 3000000 INFO @ Sat, 15 Jan 2022 21:29:46: 8000000 INFO @ Sat, 15 Jan 2022 21:29:48: 4000000 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 21:29:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.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 21:29:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:29:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:29:53: 9000000 INFO @ Sat, 15 Jan 2022 21:29:55: 5000000 INFO @ Sat, 15 Jan 2022 21:29:58: 1000000 INFO @ Sat, 15 Jan 2022 21:29:59: 10000000 INFO @ Sat, 15 Jan 2022 21:30:01: 6000000 INFO @ Sat, 15 Jan 2022 21:30:05: 2000000 INFO @ Sat, 15 Jan 2022 21:30:06: 11000000 INFO @ Sat, 15 Jan 2022 21:30:08: 7000000 INFO @ Sat, 15 Jan 2022 21:30:11: 3000000 INFO @ Sat, 15 Jan 2022 21:30:13: 12000000 INFO @ Sat, 15 Jan 2022 21:30:15: 8000000 INFO @ Sat, 15 Jan 2022 21:30:18: 4000000 INFO @ Sat, 15 Jan 2022 21:30:20: 13000000 INFO @ Sat, 15 Jan 2022 21:30:22: 9000000 INFO @ Sat, 15 Jan 2022 21:30:24: 5000000 INFO @ Sat, 15 Jan 2022 21:30:27: 14000000 INFO @ Sat, 15 Jan 2022 21:30:27: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:30:27: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:30:27: #1 total tags in treatment: 6759748 INFO @ Sat, 15 Jan 2022 21:30:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:30:27: #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 21:30:28: #1 tags after filtering in treatment: 4225828 INFO @ Sat, 15 Jan 2022 21:30:28: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 21:30:28: #1 finished! INFO @ Sat, 15 Jan 2022 21:30:28: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:30:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:30:28: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:30:28: 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 21:30:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 21:30:29: 10000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:30:30: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:30:36: 11000000 INFO @ Sat, 15 Jan 2022 21:30:37: 7000000 INFO @ Sat, 15 Jan 2022 21:30:42: 12000000 INFO @ Sat, 15 Jan 2022 21:30:43: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:30:49: 9000000 INFO @ Sat, 15 Jan 2022 21:30:49: 13000000 INFO @ Sat, 15 Jan 2022 21:30:55: 10000000 INFO @ Sat, 15 Jan 2022 21:30:56: 14000000 INFO @ Sat, 15 Jan 2022 21:30:56: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:30:56: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:30:56: #1 total tags in treatment: 6759748 INFO @ Sat, 15 Jan 2022 21:30:56: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:30:56: #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 21:30:56: #1 tags after filtering in treatment: 4225828 INFO @ Sat, 15 Jan 2022 21:30:56: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 21:30:56: #1 finished! INFO @ Sat, 15 Jan 2022 21:30:56: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:30:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:30:56: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:30:56: 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 21:30:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.10_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/SRX9399136/SRX9399136.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:31:01: 11000000 INFO @ Sat, 15 Jan 2022 21:31:07: 12000000 INFO @ Sat, 15 Jan 2022 21:31:13: 13000000 INFO @ Sat, 15 Jan 2022 21:31:18: 14000000 INFO @ Sat, 15 Jan 2022 21:31:18: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:31:18: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:31:18: #1 total tags in treatment: 6759748 INFO @ Sat, 15 Jan 2022 21:31:18: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:31:18: #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 21:31:18: #1 tags after filtering in treatment: 4225828 INFO @ Sat, 15 Jan 2022 21:31:18: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 21:31:18: #1 finished! INFO @ Sat, 15 Jan 2022 21:31:18: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:31:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:31:19: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:31:19: 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 21:31:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.20_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/SRX9399136/SRX9399136.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399136/SRX9399136.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling