Job ID = 14521753 SRX = SRX9399053 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6743062 spots for SRR12935334/SRR12935334.sra Written 6743062 spots for SRR12935334/SRR12935334.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: 00:03:15 6743062 reads; of these: 6743062 (100.00%) were paired; of these: 1025157 (15.20%) aligned concordantly 0 times 5046053 (74.83%) aligned concordantly exactly 1 time 671852 (9.96%) aligned concordantly >1 times ---- 1025157 pairs aligned concordantly 0 times; of these: 225315 (21.98%) aligned discordantly 1 time ---- 799842 pairs aligned 0 times concordantly or discordantly; of these: 1599684 mates make up the pairs; of these: 1211532 (75.74%) aligned 0 times 295012 (18.44%) aligned exactly 1 time 93140 (5.82%) aligned >1 times 91.02% overall alignment rate Time searching: 00:03:15 Overall time: 00:03:15 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] 491883 / 5849414 = 0.0841 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 21:38:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.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 21:38:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:38:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:38:59: 1000000 INFO @ Sat, 15 Jan 2022 21:39:04: 2000000 INFO @ Sat, 15 Jan 2022 21:39:09: 3000000 INFO @ Sat, 15 Jan 2022 21:39:14: 4000000 INFO @ Sat, 15 Jan 2022 21:39:19: 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 21:39:23: 6000000 INFO @ Sat, 15 Jan 2022 21:39:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.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 21:39:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:39:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:39:28: 7000000 INFO @ Sat, 15 Jan 2022 21:39:29: 1000000 INFO @ Sat, 15 Jan 2022 21:39:33: 8000000 INFO @ Sat, 15 Jan 2022 21:39:34: 2000000 INFO @ Sat, 15 Jan 2022 21:39:38: 3000000 INFO @ Sat, 15 Jan 2022 21:39:38: 9000000 INFO @ Sat, 15 Jan 2022 21:39:43: 4000000 INFO @ Sat, 15 Jan 2022 21:39:43: 10000000 INFO @ Sat, 15 Jan 2022 21:39:47: 5000000 INFO @ Sat, 15 Jan 2022 21:39:48: 11000000 INFO @ Sat, 15 Jan 2022 21:39:50: #1 tag size is determined as 45 bps INFO @ Sat, 15 Jan 2022 21:39:50: #1 tag size = 45 INFO @ Sat, 15 Jan 2022 21:39:50: #1 total tags in treatment: 5229861 INFO @ Sat, 15 Jan 2022 21:39:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:39:50: #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 21:39:50: #1 tags after filtering in treatment: 3503403 INFO @ Sat, 15 Jan 2022 21:39:50: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:39:50: #1 finished! INFO @ Sat, 15 Jan 2022 21:39:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:39:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:39:50: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:39:50: 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 21:39:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.05_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/SRX9399053/SRX9399053.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:39:52: 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 21:39:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.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 21:39:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:39:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:39:56: 7000000 INFO @ Sat, 15 Jan 2022 21:39:59: 1000000 INFO @ Sat, 15 Jan 2022 21:40:01: 8000000 INFO @ Sat, 15 Jan 2022 21:40:03: 2000000 INFO @ Sat, 15 Jan 2022 21:40:05: 9000000 INFO @ Sat, 15 Jan 2022 21:40:08: 3000000 INFO @ Sat, 15 Jan 2022 21:40:10: 10000000 INFO @ Sat, 15 Jan 2022 21:40:13: 4000000 INFO @ Sat, 15 Jan 2022 21:40:14: 11000000 INFO @ Sat, 15 Jan 2022 21:40:15: #1 tag size is determined as 45 bps INFO @ Sat, 15 Jan 2022 21:40:15: #1 tag size = 45 INFO @ Sat, 15 Jan 2022 21:40:15: #1 total tags in treatment: 5229861 INFO @ Sat, 15 Jan 2022 21:40:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:40:15: #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 21:40:15: #1 tags after filtering in treatment: 3503403 INFO @ Sat, 15 Jan 2022 21:40:15: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:40:15: #1 finished! INFO @ Sat, 15 Jan 2022 21:40:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:40:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:40:15: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:40:15: 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 21:40:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.10_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/SRX9399053/SRX9399053.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:40:19: 5000000 INFO @ Sat, 15 Jan 2022 21:40:24: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:40:29: 7000000 INFO @ Sat, 15 Jan 2022 21:40:34: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:40:39: 9000000 INFO @ Sat, 15 Jan 2022 21:40:44: 10000000 INFO @ Sat, 15 Jan 2022 21:40:49: 11000000 INFO @ Sat, 15 Jan 2022 21:40:50: #1 tag size is determined as 45 bps INFO @ Sat, 15 Jan 2022 21:40:50: #1 tag size = 45 INFO @ Sat, 15 Jan 2022 21:40:50: #1 total tags in treatment: 5229861 INFO @ Sat, 15 Jan 2022 21:40:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:40:50: #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 21:40:51: #1 tags after filtering in treatment: 3503403 INFO @ Sat, 15 Jan 2022 21:40:51: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:40:51: #1 finished! INFO @ Sat, 15 Jan 2022 21:40:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:40:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:40:51: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:40:51: 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 21:40:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.20_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/SRX9399053/SRX9399053.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399053/SRX9399053.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling