Job ID = 14521013 SRX = SRX9397558 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5404657 spots for SRR12933793/SRR12933793.sra Written 5404657 spots for SRR12933793/SRR12933793.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: 00:03:19 5404657 reads; of these: 5404657 (100.00%) were paired; of these: 1314444 (24.32%) aligned concordantly 0 times 3385815 (62.65%) aligned concordantly exactly 1 time 704398 (13.03%) aligned concordantly >1 times ---- 1314444 pairs aligned concordantly 0 times; of these: 96504 (7.34%) aligned discordantly 1 time ---- 1217940 pairs aligned 0 times concordantly or discordantly; of these: 2435880 mates make up the pairs; of these: 2367508 (97.19%) aligned 0 times 16229 (0.67%) aligned exactly 1 time 52143 (2.14%) aligned >1 times 78.10% overall alignment rate Time searching: 00:03:19 Overall time: 00:03:19 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_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] 674205 / 4173223 = 0.1616 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 20:22:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.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 20:22:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:22:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:22:29: 1000000 INFO @ Sat, 15 Jan 2022 20:22:34: 2000000 INFO @ Sat, 15 Jan 2022 20:22:39: 3000000 INFO @ Sat, 15 Jan 2022 20:22:44: 4000000 INFO @ Sat, 15 Jan 2022 20:22:49: 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 20:22:53: 6000000 INFO @ Sat, 15 Jan 2022 20:22:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.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 20:22:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:22:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:22:58: 7000000 INFO @ Sat, 15 Jan 2022 20:22:59: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:22:59: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:22:59: #1 total tags in treatment: 3426280 INFO @ Sat, 15 Jan 2022 20:22:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:22:59: #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 20:22:59: #1 tags after filtering in treatment: 2497506 INFO @ Sat, 15 Jan 2022 20:22:59: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 20:22:59: #1 finished! INFO @ Sat, 15 Jan 2022 20:22:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:22:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:22:59: #2 number of paired peaks: 31 WARNING @ Sat, 15 Jan 2022 20:22:59: Too few paired peaks (31) 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 20:22:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.05_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/SRX9397558/SRX9397558.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:23:00: 1000000 INFO @ Sat, 15 Jan 2022 20:23:05: 2000000 INFO @ Sat, 15 Jan 2022 20:23:10: 3000000 INFO @ Sat, 15 Jan 2022 20:23:15: 4000000 INFO @ Sat, 15 Jan 2022 20:23:20: 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 20:23:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.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 20:23:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:23:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:23:25: 6000000 INFO @ Sat, 15 Jan 2022 20:23:29: 1000000 INFO @ Sat, 15 Jan 2022 20:23:30: 7000000 INFO @ Sat, 15 Jan 2022 20:23:31: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:23:31: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:23:31: #1 total tags in treatment: 3426280 INFO @ Sat, 15 Jan 2022 20:23:31: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:23:31: #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 20:23:31: #1 tags after filtering in treatment: 2497506 INFO @ Sat, 15 Jan 2022 20:23:31: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 20:23:31: #1 finished! INFO @ Sat, 15 Jan 2022 20:23:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:23:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:23:31: #2 number of paired peaks: 31 WARNING @ Sat, 15 Jan 2022 20:23:31: Too few paired peaks (31) 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 20:23:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.10_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/SRX9397558/SRX9397558.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:23:34: 2000000 INFO @ Sat, 15 Jan 2022 20:23:39: 3000000 INFO @ Sat, 15 Jan 2022 20:23:43: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:23:48: 5000000 INFO @ Sat, 15 Jan 2022 20:23:52: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:23:57: 7000000 INFO @ Sat, 15 Jan 2022 20:23:57: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:23:57: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:23:57: #1 total tags in treatment: 3426280 INFO @ Sat, 15 Jan 2022 20:23:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:23:57: #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 20:23:57: #1 tags after filtering in treatment: 2497506 INFO @ Sat, 15 Jan 2022 20:23:57: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 20:23:57: #1 finished! INFO @ Sat, 15 Jan 2022 20:23:57: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:23:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:23:57: #2 number of paired peaks: 31 WARNING @ Sat, 15 Jan 2022 20:23:57: Too few paired peaks (31) 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 20:23:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.20_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/SRX9397558/SRX9397558.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397558/SRX9397558.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling