Job ID = 14521760 SRX = SRX9399170 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7155905 spots for SRR12935451/SRR12935451.sra Written 7155905 spots for SRR12935451/SRR12935451.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: 00:05:20 7155905 reads; of these: 7155905 (100.00%) were paired; of these: 1364338 (19.07%) aligned concordantly 0 times 4956047 (69.26%) aligned concordantly exactly 1 time 835520 (11.68%) aligned concordantly >1 times ---- 1364338 pairs aligned concordantly 0 times; of these: 271414 (19.89%) aligned discordantly 1 time ---- 1092924 pairs aligned 0 times concordantly or discordantly; of these: 2185848 mates make up the pairs; of these: 1847959 (84.54%) aligned 0 times 224608 (10.28%) aligned exactly 1 time 113281 (5.18%) aligned >1 times 87.09% overall alignment rate Time searching: 00:05:20 Overall time: 00:05:20 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] 842127 / 5959537 = 0.1413 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 21:42:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.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 21:42:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:42:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:42:51: 1000000 INFO @ Sat, 15 Jan 2022 21:42:57: 2000000 INFO @ Sat, 15 Jan 2022 21:43:03: 3000000 INFO @ Sat, 15 Jan 2022 21:43:10: 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 21:43:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.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 21:43:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:43:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:43:16: 5000000 INFO @ Sat, 15 Jan 2022 21:43:21: 1000000 INFO @ Sat, 15 Jan 2022 21:43:22: 6000000 INFO @ Sat, 15 Jan 2022 21:43:27: 2000000 INFO @ Sat, 15 Jan 2022 21:43:29: 7000000 INFO @ Sat, 15 Jan 2022 21:43:32: 3000000 INFO @ Sat, 15 Jan 2022 21:43:35: 8000000 INFO @ Sat, 15 Jan 2022 21:43:38: 4000000 INFO @ Sat, 15 Jan 2022 21:43:40: 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 21:43:43: 5000000 INFO @ Sat, 15 Jan 2022 21:43:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.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 21:43:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:43:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:43:45: 10000000 INFO @ Sat, 15 Jan 2022 21:43:48: 6000000 INFO @ Sat, 15 Jan 2022 21:43:50: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:43:50: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:43:50: #1 total tags in treatment: 4964847 INFO @ Sat, 15 Jan 2022 21:43:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:43:50: #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 21:43:50: 1000000 INFO @ Sat, 15 Jan 2022 21:43:50: #1 tags after filtering in treatment: 3250577 INFO @ Sat, 15 Jan 2022 21:43:50: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:43:50: #1 finished! INFO @ Sat, 15 Jan 2022 21:43:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:43:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:43:50: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 21:43:50: Too few paired peaks (2) 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 21:43:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.05_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/SRX9399170/SRX9399170.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:43:54: 7000000 INFO @ Sat, 15 Jan 2022 21:43:55: 2000000 INFO @ Sat, 15 Jan 2022 21:43:59: 8000000 INFO @ Sat, 15 Jan 2022 21:44:01: 3000000 INFO @ Sat, 15 Jan 2022 21:44:04: 9000000 INFO @ Sat, 15 Jan 2022 21:44:06: 4000000 INFO @ Sat, 15 Jan 2022 21:44:09: 10000000 INFO @ Sat, 15 Jan 2022 21:44:11: 5000000 INFO @ Sat, 15 Jan 2022 21:44:13: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:44:13: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:44:13: #1 total tags in treatment: 4964847 INFO @ Sat, 15 Jan 2022 21:44:13: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:44:13: #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 21:44:13: #1 tags after filtering in treatment: 3250577 INFO @ Sat, 15 Jan 2022 21:44:13: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:44:13: #1 finished! INFO @ Sat, 15 Jan 2022 21:44:13: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:44:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:44:13: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 21:44:13: Too few paired peaks (2) 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 21:44:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.10_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/SRX9399170/SRX9399170.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:44:16: 6000000 INFO @ Sat, 15 Jan 2022 21:44:21: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:44:25: 8000000 INFO @ Sat, 15 Jan 2022 21:44:30: 9000000 INFO @ Sat, 15 Jan 2022 21:44:35: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:44:38: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:44:38: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:44:38: #1 total tags in treatment: 4964847 INFO @ Sat, 15 Jan 2022 21:44:38: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:44:38: #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 21:44:39: #1 tags after filtering in treatment: 3250577 INFO @ Sat, 15 Jan 2022 21:44:39: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:44:39: #1 finished! INFO @ Sat, 15 Jan 2022 21:44:39: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:44:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:44:39: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 21:44:39: Too few paired peaks (2) 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 21:44:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.20_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/SRX9399170/SRX9399170.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399170/SRX9399170.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling