Job ID = 14522098 SRX = SRX9067134 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6989399 spots for SRR12580287/SRR12580287.sra Written 6989399 spots for SRR12580287/SRR12580287.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: 00:03:26 6989399 reads; of these: 6989399 (100.00%) were paired; of these: 1506267 (21.55%) aligned concordantly 0 times 4732772 (67.71%) aligned concordantly exactly 1 time 750360 (10.74%) aligned concordantly >1 times ---- 1506267 pairs aligned concordantly 0 times; of these: 290429 (19.28%) aligned discordantly 1 time ---- 1215838 pairs aligned 0 times concordantly or discordantly; of these: 2431676 mates make up the pairs; of these: 2147016 (88.29%) aligned 0 times 179308 (7.37%) aligned exactly 1 time 105352 (4.33%) aligned >1 times 84.64% overall alignment rate Time searching: 00:03:26 Overall time: 00:03:26 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] 806110 / 5682767 = 0.1419 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 22:15:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.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 22:15:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:15:57: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:16:02: 1000000 INFO @ Sat, 15 Jan 2022 22:16:08: 2000000 INFO @ Sat, 15 Jan 2022 22:16:13: 3000000 INFO @ Sat, 15 Jan 2022 22:16:19: 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 22:16:25: 5000000 INFO @ Sat, 15 Jan 2022 22:16:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.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 22:16:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:16:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:16:31: 6000000 INFO @ Sat, 15 Jan 2022 22:16:33: 1000000 INFO @ Sat, 15 Jan 2022 22:16:37: 7000000 INFO @ Sat, 15 Jan 2022 22:16:38: 2000000 INFO @ Sat, 15 Jan 2022 22:16:43: 8000000 INFO @ Sat, 15 Jan 2022 22:16:44: 3000000 INFO @ Sat, 15 Jan 2022 22:16:50: 9000000 INFO @ Sat, 15 Jan 2022 22:16:50: 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 22:16:56: 5000000 INFO @ Sat, 15 Jan 2022 22:16:56: 10000000 INFO @ Sat, 15 Jan 2022 22:16:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.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 22:16:57: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:16:57: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:16:57: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 22:16:57: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 22:16:57: #1 total tags in treatment: 4697446 INFO @ Sat, 15 Jan 2022 22:16:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:16:57: #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 22:16:57: #1 tags after filtering in treatment: 3124575 INFO @ Sat, 15 Jan 2022 22:16:57: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 22:16:57: #1 finished! INFO @ Sat, 15 Jan 2022 22:16:57: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:16:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:16:57: #2 number of paired peaks: 3 WARNING @ Sat, 15 Jan 2022 22:16:57: Too few paired peaks (3) 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 22:16:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.05_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/SRX9067134/SRX9067134.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:17:01: 6000000 INFO @ Sat, 15 Jan 2022 22:17:03: 1000000 INFO @ Sat, 15 Jan 2022 22:17:07: 7000000 INFO @ Sat, 15 Jan 2022 22:17:09: 2000000 INFO @ Sat, 15 Jan 2022 22:17:13: 8000000 INFO @ Sat, 15 Jan 2022 22:17:16: 3000000 INFO @ Sat, 15 Jan 2022 22:17:20: 9000000 INFO @ Sat, 15 Jan 2022 22:17:22: 4000000 INFO @ Sat, 15 Jan 2022 22:17:26: 10000000 INFO @ Sat, 15 Jan 2022 22:17:27: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 22:17:27: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 22:17:27: #1 total tags in treatment: 4697446 INFO @ Sat, 15 Jan 2022 22:17:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:17:27: #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 22:17:27: #1 tags after filtering in treatment: 3124575 INFO @ Sat, 15 Jan 2022 22:17:27: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 22:17:27: #1 finished! INFO @ Sat, 15 Jan 2022 22:17:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:17:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:17:27: #2 number of paired peaks: 3 WARNING @ Sat, 15 Jan 2022 22:17:27: Too few paired peaks (3) 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 22:17:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.10_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/SRX9067134/SRX9067134.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:17:28: 5000000 INFO @ Sat, 15 Jan 2022 22:17:34: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:17:40: 7000000 INFO @ Sat, 15 Jan 2022 22:17:46: 8000000 INFO @ Sat, 15 Jan 2022 22:17:52: 9000000 INFO @ Sat, 15 Jan 2022 22:17:59: 10000000 INFO @ Sat, 15 Jan 2022 22:18:00: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 22:18:00: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 22:18:00: #1 total tags in treatment: 4697446 INFO @ Sat, 15 Jan 2022 22:18:00: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:18:00: #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 22:18:00: #1 tags after filtering in treatment: 3124575 INFO @ Sat, 15 Jan 2022 22:18:00: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 22:18:00: #1 finished! INFO @ Sat, 15 Jan 2022 22:18:00: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:18:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:18:00: #2 number of paired peaks: 3 WARNING @ Sat, 15 Jan 2022 22:18:00: Too few paired peaks (3) 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 22:18:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.20_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/SRX9067134/SRX9067134.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067134/SRX9067134.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling