Job ID = 14521802 SRX = SRX9399182 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8342163 spots for SRR12935463/SRR12935463.sra Written 8342163 spots for SRR12935463/SRR12935463.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: 00:04:21 8342163 reads; of these: 8342163 (100.00%) were paired; of these: 1176509 (14.10%) aligned concordantly 0 times 5837160 (69.97%) aligned concordantly exactly 1 time 1328494 (15.93%) aligned concordantly >1 times ---- 1176509 pairs aligned concordantly 0 times; of these: 83554 (7.10%) aligned discordantly 1 time ---- 1092955 pairs aligned 0 times concordantly or discordantly; of these: 2185910 mates make up the pairs; of these: 1959813 (89.66%) aligned 0 times 158054 (7.23%) aligned exactly 1 time 68043 (3.11%) aligned >1 times 88.25% overall alignment rate Time searching: 00:04:21 Overall time: 00:04:21 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] 1922726 / 7235417 = 0.2657 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 21:44:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.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 21:44:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:44:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:44:44: 1000000 INFO @ Sat, 15 Jan 2022 21:44:48: 2000000 INFO @ Sat, 15 Jan 2022 21:44:52: 3000000 INFO @ Sat, 15 Jan 2022 21:44:56: 4000000 INFO @ Sat, 15 Jan 2022 21:45:00: 5000000 INFO @ Sat, 15 Jan 2022 21:45:04: 6000000 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 21:45:08: 7000000 INFO @ Sat, 15 Jan 2022 21:45:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.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 21:45:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:45:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:45:12: 8000000 INFO @ Sat, 15 Jan 2022 21:45:14: 1000000 INFO @ Sat, 15 Jan 2022 21:45:16: 9000000 INFO @ Sat, 15 Jan 2022 21:45:19: 2000000 INFO @ Sat, 15 Jan 2022 21:45:20: 10000000 INFO @ Sat, 15 Jan 2022 21:45:24: 3000000 INFO @ Sat, 15 Jan 2022 21:45:24: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:45:24: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:45:24: #1 total tags in treatment: 5254898 INFO @ Sat, 15 Jan 2022 21:45:24: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:45:24: #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 21:45:24: #1 tags after filtering in treatment: 3381750 INFO @ Sat, 15 Jan 2022 21:45:24: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 15 Jan 2022 21:45:24: #1 finished! INFO @ Sat, 15 Jan 2022 21:45:24: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:45:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:45:24: #2 number of paired peaks: 5 WARNING @ Sat, 15 Jan 2022 21:45:24: Too few paired peaks (5) 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 21:45:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.05_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/SRX9399182/SRX9399182.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:45:28: 4000000 INFO @ Sat, 15 Jan 2022 21:45:33: 5000000 INFO @ Sat, 15 Jan 2022 21:45:38: 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 21:45:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.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 21:45:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:45:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:45:42: 7000000 INFO @ Sat, 15 Jan 2022 21:45:44: 1000000 INFO @ Sat, 15 Jan 2022 21:45:47: 8000000 INFO @ Sat, 15 Jan 2022 21:45:49: 2000000 INFO @ Sat, 15 Jan 2022 21:45:52: 9000000 INFO @ Sat, 15 Jan 2022 21:45:54: 3000000 INFO @ Sat, 15 Jan 2022 21:45:56: 10000000 INFO @ Sat, 15 Jan 2022 21:45:59: 4000000 INFO @ Sat, 15 Jan 2022 21:46:00: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:46:00: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:46:00: #1 total tags in treatment: 5254898 INFO @ Sat, 15 Jan 2022 21:46:00: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:00: #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 21:46:00: #1 tags after filtering in treatment: 3381750 INFO @ Sat, 15 Jan 2022 21:46:00: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 15 Jan 2022 21:46:00: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:00: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:01: #2 number of paired peaks: 5 WARNING @ Sat, 15 Jan 2022 21:46:01: Too few paired peaks (5) 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 21:46:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.10_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/SRX9399182/SRX9399182.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:46:04: 5000000 INFO @ Sat, 15 Jan 2022 21:46:08: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:46:13: 7000000 INFO @ Sat, 15 Jan 2022 21:46:18: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:46:22: 9000000 INFO @ Sat, 15 Jan 2022 21:46:27: 10000000 INFO @ Sat, 15 Jan 2022 21:46:31: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:46:31: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:46:31: #1 total tags in treatment: 5254898 INFO @ Sat, 15 Jan 2022 21:46:31: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:31: #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 21:46:31: #1 tags after filtering in treatment: 3381750 INFO @ Sat, 15 Jan 2022 21:46:31: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 15 Jan 2022 21:46:31: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:32: #2 number of paired peaks: 5 WARNING @ Sat, 15 Jan 2022 21:46:32: Too few paired peaks (5) 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 21:46:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.20_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/SRX9399182/SRX9399182.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399182/SRX9399182.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling