Job ID = 14521536 SRX = SRX9493764 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4951903 spots for SRR13043886/SRR13043886.sra Written 4951903 spots for SRR13043886/SRR13043886.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: 00:26:13 4951903 reads; of these: 4951903 (100.00%) were paired; of these: 171789 (3.47%) aligned concordantly 0 times 3998096 (80.74%) aligned concordantly exactly 1 time 782018 (15.79%) aligned concordantly >1 times ---- 171789 pairs aligned concordantly 0 times; of these: 32258 (18.78%) aligned discordantly 1 time ---- 139531 pairs aligned 0 times concordantly or discordantly; of these: 279062 mates make up the pairs; of these: 205309 (73.57%) aligned 0 times 47066 (16.87%) aligned exactly 1 time 26687 (9.56%) aligned >1 times 97.93% overall alignment rate Time searching: 00:26:13 Overall time: 00:26:13 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] 130011 / 4804090 = 0.0271 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 21:38:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.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 21:38:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:38:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:39:11: 1000000 INFO @ Sat, 15 Jan 2022 21:39:23: 2000000 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 21:39:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.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 21:39:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:39:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:39:35: 3000000 INFO @ Sat, 15 Jan 2022 21:39:41: 1000000 INFO @ Sat, 15 Jan 2022 21:39:47: 4000000 INFO @ Sat, 15 Jan 2022 21:39:52: 2000000 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 21:39:59: 5000000 INFO @ Sat, 15 Jan 2022 21:39:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.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 21:39:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:39:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:40:04: 3000000 INFO @ Sat, 15 Jan 2022 21:40:08: 1000000 INFO @ Sat, 15 Jan 2022 21:40:11: 6000000 INFO @ Sat, 15 Jan 2022 21:40:16: 4000000 INFO @ Sat, 15 Jan 2022 21:40:16: 2000000 INFO @ Sat, 15 Jan 2022 21:40:22: 7000000 INFO @ Sat, 15 Jan 2022 21:40:25: 3000000 INFO @ Sat, 15 Jan 2022 21:40:27: 5000000 INFO @ Sat, 15 Jan 2022 21:40:33: 4000000 INFO @ Sat, 15 Jan 2022 21:40:34: 8000000 INFO @ Sat, 15 Jan 2022 21:40:39: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:40:42: 5000000 INFO @ Sat, 15 Jan 2022 21:40:45: 9000000 INFO @ Sat, 15 Jan 2022 21:40:49: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:40:49: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:40:49: #1 total tags in treatment: 4650608 INFO @ Sat, 15 Jan 2022 21:40:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:40:49: #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 21:40:49: #1 tags after filtering in treatment: 3741686 INFO @ Sat, 15 Jan 2022 21:40:49: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 15 Jan 2022 21:40:49: #1 finished! INFO @ Sat, 15 Jan 2022 21:40:49: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:40:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:40:50: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:40:50: Too few paired peaks (28) 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 21:40:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 21:40:50: 7000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:40:50: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:40:58: 7000000 INFO @ Sat, 15 Jan 2022 21:41:00: 8000000 INFO @ Sat, 15 Jan 2022 21:41:07: 8000000 INFO @ Sat, 15 Jan 2022 21:41:11: 9000000 INFO @ Sat, 15 Jan 2022 21:41:15: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:41:15: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:41:15: #1 total tags in treatment: 4650608 INFO @ Sat, 15 Jan 2022 21:41:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:41:15: #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 21:41:15: #1 tags after filtering in treatment: 3741686 INFO @ Sat, 15 Jan 2022 21:41:15: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 15 Jan 2022 21:41:15: #1 finished! INFO @ Sat, 15 Jan 2022 21:41:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:41:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:41:15: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:41:15: Too few paired peaks (28) 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 21:41:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.10_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 21:41:15: 9000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:41:18: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:41:18: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:41:18: #1 total tags in treatment: 4650608 INFO @ Sat, 15 Jan 2022 21:41:18: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:41:19: #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 21:41:19: #1 tags after filtering in treatment: 3741686 INFO @ Sat, 15 Jan 2022 21:41:19: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 15 Jan 2022 21:41:19: #1 finished! INFO @ Sat, 15 Jan 2022 21:41:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:41:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:41:19: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:41:19: Too few paired peaks (28) 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 21:41:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.20_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/SRX9493764/SRX9493764.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493764/SRX9493764.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling