Job ID = 14520349 SRX = SRX11781100 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T09:59:21 prefetch.2.10.7: 1) Downloading 'SRR15481043'... 2022-01-15T09:59:21 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:01:30 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:01:30 prefetch.2.10.7: 1) 'SRR15481043' was downloaded successfully 2022-01-15T10:01:30 prefetch.2.10.7: 'SRR15481043' has 0 unresolved dependencies Read 16341889 spots for SRR15481043/SRR15481043.sra Written 16341889 spots for SRR15481043/SRR15481043.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: 00:20:49 16341889 reads; of these: 16341889 (100.00%) were paired; of these: 4176099 (25.55%) aligned concordantly 0 times 8283427 (50.69%) aligned concordantly exactly 1 time 3882363 (23.76%) aligned concordantly >1 times ---- 4176099 pairs aligned concordantly 0 times; of these: 179893 (4.31%) aligned discordantly 1 time ---- 3996206 pairs aligned 0 times concordantly or discordantly; of these: 7992412 mates make up the pairs; of these: 6019434 (75.31%) aligned 0 times 1291697 (16.16%) aligned exactly 1 time 681281 (8.52%) aligned >1 times 81.58% overall alignment rate Time searching: 00:20:49 Overall time: 00:20:49 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 12 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] 3863327 / 12343160 = 0.3130 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 19:32:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.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 19:32:05: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:32:05: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:32:10: 1000000 INFO @ Sat, 15 Jan 2022 19:32:15: 2000000 INFO @ Sat, 15 Jan 2022 19:32:20: 3000000 INFO @ Sat, 15 Jan 2022 19:32:25: 4000000 INFO @ Sat, 15 Jan 2022 19:32:30: 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 19:32:35: 6000000 INFO @ Sat, 15 Jan 2022 19:32:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.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 19:32:35: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:32:35: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:32:40: 7000000 INFO @ Sat, 15 Jan 2022 19:32:40: 1000000 INFO @ Sat, 15 Jan 2022 19:32:45: 8000000 INFO @ Sat, 15 Jan 2022 19:32:46: 2000000 INFO @ Sat, 15 Jan 2022 19:32:51: 9000000 INFO @ Sat, 15 Jan 2022 19:32:51: 3000000 INFO @ Sat, 15 Jan 2022 19:32:56: 10000000 INFO @ Sat, 15 Jan 2022 19:32:56: 4000000 INFO @ Sat, 15 Jan 2022 19:33:02: 11000000 INFO @ Sat, 15 Jan 2022 19:33:02: 5000000 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 19:33:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.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 19:33:05: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:33:05: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:33:07: 12000000 INFO @ Sat, 15 Jan 2022 19:33:07: 6000000 INFO @ Sat, 15 Jan 2022 19:33:11: 1000000 INFO @ Sat, 15 Jan 2022 19:33:12: 13000000 INFO @ Sat, 15 Jan 2022 19:33:13: 7000000 INFO @ Sat, 15 Jan 2022 19:33:16: 2000000 INFO @ Sat, 15 Jan 2022 19:33:18: 14000000 INFO @ Sat, 15 Jan 2022 19:33:18: 8000000 INFO @ Sat, 15 Jan 2022 19:33:22: 3000000 INFO @ Sat, 15 Jan 2022 19:33:23: 15000000 INFO @ Sat, 15 Jan 2022 19:33:24: 9000000 INFO @ Sat, 15 Jan 2022 19:33:27: 4000000 INFO @ Sat, 15 Jan 2022 19:33:29: 16000000 INFO @ Sat, 15 Jan 2022 19:33:29: 10000000 INFO @ Sat, 15 Jan 2022 19:33:32: 5000000 INFO @ Sat, 15 Jan 2022 19:33:34: 17000000 INFO @ Sat, 15 Jan 2022 19:33:35: 11000000 INFO @ Sat, 15 Jan 2022 19:33:38: 6000000 INFO @ Sat, 15 Jan 2022 19:33:40: 18000000 INFO @ Sat, 15 Jan 2022 19:33:40: 12000000 INFO @ Sat, 15 Jan 2022 19:33:43: 7000000 INFO @ Sat, 15 Jan 2022 19:33:45: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 19:33:45: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 19:33:45: #1 total tags in treatment: 8346743 INFO @ Sat, 15 Jan 2022 19:33:45: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:33:45: #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 19:33:45: #1 tags after filtering in treatment: 4583595 INFO @ Sat, 15 Jan 2022 19:33:45: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 15 Jan 2022 19:33:45: #1 finished! INFO @ Sat, 15 Jan 2022 19:33:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:33:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:33:45: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 19:33:45: Too few paired peaks (34) 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 19:33:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 19:33:46: 13000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:33:48: 8000000 INFO @ Sat, 15 Jan 2022 19:33:51: 14000000 INFO @ Sat, 15 Jan 2022 19:33:54: 9000000 INFO @ Sat, 15 Jan 2022 19:33:56: 15000000 INFO @ Sat, 15 Jan 2022 19:33:59: 10000000 INFO @ Sat, 15 Jan 2022 19:34:02: 16000000 INFO @ Sat, 15 Jan 2022 19:34:04: 11000000 INFO @ Sat, 15 Jan 2022 19:34:07: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:34:10: 12000000 INFO @ Sat, 15 Jan 2022 19:34:13: 18000000 INFO @ Sat, 15 Jan 2022 19:34:15: 13000000 INFO @ Sat, 15 Jan 2022 19:34:18: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 19:34:18: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 19:34:18: #1 total tags in treatment: 8346743 INFO @ Sat, 15 Jan 2022 19:34:18: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:34:18: #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 19:34:18: #1 tags after filtering in treatment: 4583595 INFO @ Sat, 15 Jan 2022 19:34:18: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 15 Jan 2022 19:34:18: #1 finished! INFO @ Sat, 15 Jan 2022 19:34:18: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:34:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:34:18: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 19:34:18: Too few paired peaks (34) 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 19:34:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.10_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/SRX11781100/SRX11781100.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:34:20: 14000000 INFO @ Sat, 15 Jan 2022 19:34:25: 15000000 INFO @ Sat, 15 Jan 2022 19:34:31: 16000000 INFO @ Sat, 15 Jan 2022 19:34:36: 17000000 INFO @ Sat, 15 Jan 2022 19:34:41: 18000000 INFO @ Sat, 15 Jan 2022 19:34:46: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 19:34:46: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 19:34:46: #1 total tags in treatment: 8346743 INFO @ Sat, 15 Jan 2022 19:34:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:34:46: #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 19:34:46: #1 tags after filtering in treatment: 4583595 INFO @ Sat, 15 Jan 2022 19:34:46: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 15 Jan 2022 19:34:46: #1 finished! INFO @ Sat, 15 Jan 2022 19:34:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:34:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:34:46: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 19:34:46: Too few paired peaks (34) 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 19:34:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.20_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/SRX11781100/SRX11781100.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781100/SRX11781100.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling