Job ID = 14520161 SRX = SRX10592362 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T09:27:52 prefetch.2.10.7: 1) Downloading 'SRR14227546'... 2022-01-15T09:27:52 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T09:29:12 prefetch.2.10.7: HTTPS download succeed 2022-01-15T09:29:12 prefetch.2.10.7: 1) 'SRR14227546' was downloaded successfully 2022-01-15T09:29:12 prefetch.2.10.7: 'SRR14227546' has 0 unresolved dependencies Read 27848744 spots for SRR14227546/SRR14227546.sra Written 27848744 spots for SRR14227546/SRR14227546.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: 00:22:31 27848744 reads; of these: 27848744 (100.00%) were paired; of these: 2376528 (8.53%) aligned concordantly 0 times 19692677 (70.71%) aligned concordantly exactly 1 time 5779539 (20.75%) aligned concordantly >1 times ---- 2376528 pairs aligned concordantly 0 times; of these: 75032 (3.16%) aligned discordantly 1 time ---- 2301496 pairs aligned 0 times concordantly or discordantly; of these: 4602992 mates make up the pairs; of these: 4016995 (87.27%) aligned 0 times 448017 (9.73%) aligned exactly 1 time 137980 (3.00%) aligned >1 times 92.79% overall alignment rate Time searching: 00:22:31 Overall time: 00:22:31 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 24 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] 20118244 / 25542469 = 0.7876 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 19:04:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.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 19:04:47: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:04:47: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:04:53: 1000000 INFO @ Sat, 15 Jan 2022 19:05:00: 2000000 INFO @ Sat, 15 Jan 2022 19:05:06: 3000000 INFO @ Sat, 15 Jan 2022 19:05:12: 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 19:05:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.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 19:05:18: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:05:18: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:05:19: 5000000 INFO @ Sat, 15 Jan 2022 19:05:25: 1000000 INFO @ Sat, 15 Jan 2022 19:05:25: 6000000 INFO @ Sat, 15 Jan 2022 19:05:32: 7000000 INFO @ Sat, 15 Jan 2022 19:05:32: 2000000 INFO @ Sat, 15 Jan 2022 19:05:38: 8000000 INFO @ Sat, 15 Jan 2022 19:05:40: 3000000 INFO @ Sat, 15 Jan 2022 19:05:45: 9000000 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 19:05:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.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 19:05:48: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:05:48: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:05:48: 4000000 INFO @ Sat, 15 Jan 2022 19:05:51: 10000000 INFO @ Sat, 15 Jan 2022 19:05:54: 1000000 INFO @ Sat, 15 Jan 2022 19:05:55: 5000000 INFO @ Sat, 15 Jan 2022 19:05:58: 11000000 INFO @ Sat, 15 Jan 2022 19:06:00: 2000000 INFO @ Sat, 15 Jan 2022 19:06:01: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 19:06:01: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 19:06:01: #1 total tags in treatment: 5407189 INFO @ Sat, 15 Jan 2022 19:06:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:06:01: #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 19:06:02: #1 tags after filtering in treatment: 3756350 INFO @ Sat, 15 Jan 2022 19:06:02: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 19:06:02: #1 finished! INFO @ Sat, 15 Jan 2022 19:06:02: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:06:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:06:02: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 19:06:02: Too few paired peaks (29) 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 19:06:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.05_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/SRX10592362/SRX10592362.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:06:03: 6000000 INFO @ Sat, 15 Jan 2022 19:06:06: 3000000 INFO @ Sat, 15 Jan 2022 19:06:11: 7000000 INFO @ Sat, 15 Jan 2022 19:06:13: 4000000 INFO @ Sat, 15 Jan 2022 19:06:19: 8000000 INFO @ Sat, 15 Jan 2022 19:06:19: 5000000 INFO @ Sat, 15 Jan 2022 19:06:25: 6000000 INFO @ Sat, 15 Jan 2022 19:06:26: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:06:31: 7000000 INFO @ Sat, 15 Jan 2022 19:06:34: 10000000 INFO @ Sat, 15 Jan 2022 19:06:37: 8000000 INFO @ Sat, 15 Jan 2022 19:06:41: 11000000 INFO @ Sat, 15 Jan 2022 19:06:43: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:06:44: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 19:06:44: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 19:06:44: #1 total tags in treatment: 5407189 INFO @ Sat, 15 Jan 2022 19:06:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:06:44: #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 19:06:45: #1 tags after filtering in treatment: 3756350 INFO @ Sat, 15 Jan 2022 19:06:45: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 19:06:45: #1 finished! INFO @ Sat, 15 Jan 2022 19:06:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:06:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:06:45: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 19:06:45: Too few paired peaks (29) 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 19:06:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.10_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/SRX10592362/SRX10592362.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:06:49: 10000000 INFO @ Sat, 15 Jan 2022 19:06:56: 11000000 INFO @ Sat, 15 Jan 2022 19:06:58: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 19:06:58: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 19:06:58: #1 total tags in treatment: 5407189 INFO @ Sat, 15 Jan 2022 19:06:58: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:06:58: #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 19:06:58: #1 tags after filtering in treatment: 3756350 INFO @ Sat, 15 Jan 2022 19:06:58: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 19:06:58: #1 finished! INFO @ Sat, 15 Jan 2022 19:06:58: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:06:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:06:59: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 19:06:59: Too few paired peaks (29) 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 19:06:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.20_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/SRX10592362/SRX10592362.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592362/SRX10592362.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling