Job ID = 14522065 SRX = SRX9067217 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12338589 spots for SRR12580370/SRR12580370.sra Written 12338589 spots for SRR12580370/SRR12580370.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: 00:04:21 12338589 reads; of these: 12338589 (100.00%) were paired; of these: 4223607 (34.23%) aligned concordantly 0 times 7169156 (58.10%) aligned concordantly exactly 1 time 945826 (7.67%) aligned concordantly >1 times ---- 4223607 pairs aligned concordantly 0 times; of these: 555425 (13.15%) aligned discordantly 1 time ---- 3668182 pairs aligned 0 times concordantly or discordantly; of these: 7336364 mates make up the pairs; of these: 6398474 (87.22%) aligned 0 times 717844 (9.78%) aligned exactly 1 time 220046 (3.00%) aligned >1 times 74.07% overall alignment rate Time searching: 00:04:21 Overall time: 00:04:21 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] 759949 / 8473070 = 0.0897 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 22:15:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.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 22:15:48: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:15:48: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:15:52: 1000000 INFO @ Sat, 15 Jan 2022 22:15:57: 2000000 INFO @ Sat, 15 Jan 2022 22:16:01: 3000000 INFO @ Sat, 15 Jan 2022 22:16:05: 4000000 INFO @ Sat, 15 Jan 2022 22:16:09: 5000000 INFO @ Sat, 15 Jan 2022 22:16:14: 6000000 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 22:16:18: 7000000 INFO @ Sat, 15 Jan 2022 22:16:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.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 22:16:18: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:16:18: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:16:23: 8000000 INFO @ Sat, 15 Jan 2022 22:16:23: 1000000 INFO @ Sat, 15 Jan 2022 22:16:27: 9000000 INFO @ Sat, 15 Jan 2022 22:16:27: 2000000 INFO @ Sat, 15 Jan 2022 22:16:32: 10000000 INFO @ Sat, 15 Jan 2022 22:16:32: 3000000 INFO @ Sat, 15 Jan 2022 22:16:37: 11000000 INFO @ Sat, 15 Jan 2022 22:16:37: 4000000 INFO @ Sat, 15 Jan 2022 22:16:41: 12000000 INFO @ Sat, 15 Jan 2022 22:16:42: 5000000 INFO @ Sat, 15 Jan 2022 22:16:46: 13000000 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 22:16:46: 6000000 INFO @ Sat, 15 Jan 2022 22:16:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.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 22:16:48: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:16:48: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:16:51: 14000000 INFO @ Sat, 15 Jan 2022 22:16:52: 7000000 INFO @ Sat, 15 Jan 2022 22:16:53: 1000000 INFO @ Sat, 15 Jan 2022 22:16:56: 15000000 INFO @ Sat, 15 Jan 2022 22:16:57: 8000000 INFO @ Sat, 15 Jan 2022 22:16:59: 2000000 INFO @ Sat, 15 Jan 2022 22:17:01: 16000000 INFO @ Sat, 15 Jan 2022 22:17:02: 9000000 INFO @ Sat, 15 Jan 2022 22:17:04: 3000000 INFO @ Sat, 15 Jan 2022 22:17:05: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 22:17:05: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 22:17:05: #1 total tags in treatment: 7374292 INFO @ Sat, 15 Jan 2022 22:17:05: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:17:05: #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 22:17:05: #1 tags after filtering in treatment: 4386067 INFO @ Sat, 15 Jan 2022 22:17:05: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 15 Jan 2022 22:17:05: #1 finished! INFO @ Sat, 15 Jan 2022 22:17:05: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:17:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:17:05: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:17:05: Too few paired peaks (0) 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 22:17:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.05_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/SRX9067217/SRX9067217.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:17:07: 10000000 INFO @ Sat, 15 Jan 2022 22:17:10: 4000000 INFO @ Sat, 15 Jan 2022 22:17:12: 11000000 INFO @ Sat, 15 Jan 2022 22:17:15: 5000000 INFO @ Sat, 15 Jan 2022 22:17:17: 12000000 INFO @ Sat, 15 Jan 2022 22:17:20: 6000000 INFO @ Sat, 15 Jan 2022 22:17:22: 13000000 INFO @ Sat, 15 Jan 2022 22:17:26: 7000000 INFO @ Sat, 15 Jan 2022 22:17:27: 14000000 INFO @ Sat, 15 Jan 2022 22:17:31: 8000000 INFO @ Sat, 15 Jan 2022 22:17:32: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:17:36: 9000000 INFO @ Sat, 15 Jan 2022 22:17:37: 16000000 INFO @ Sat, 15 Jan 2022 22:17:41: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 22:17:41: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 22:17:41: #1 total tags in treatment: 7374292 INFO @ Sat, 15 Jan 2022 22:17:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:17:41: #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 22:17:42: #1 tags after filtering in treatment: 4386067 INFO @ Sat, 15 Jan 2022 22:17:42: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 15 Jan 2022 22:17:42: #1 finished! INFO @ Sat, 15 Jan 2022 22:17:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:17:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:17:42: 10000000 INFO @ Sat, 15 Jan 2022 22:17:42: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:17:42: Too few paired peaks (0) 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 22:17:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.10_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/SRX9067217/SRX9067217.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:17:47: 11000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:17:52: 12000000 INFO @ Sat, 15 Jan 2022 22:17:57: 13000000 INFO @ Sat, 15 Jan 2022 22:18:02: 14000000 INFO @ Sat, 15 Jan 2022 22:18:07: 15000000 INFO @ Sat, 15 Jan 2022 22:18:12: 16000000 INFO @ Sat, 15 Jan 2022 22:18:16: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 22:18:16: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 22:18:16: #1 total tags in treatment: 7374292 INFO @ Sat, 15 Jan 2022 22:18:16: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:18:16: #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 22:18:16: #1 tags after filtering in treatment: 4386067 INFO @ Sat, 15 Jan 2022 22:18:16: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 15 Jan 2022 22:18:16: #1 finished! INFO @ Sat, 15 Jan 2022 22:18:16: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:18:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:18:16: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:18:16: Too few paired peaks (0) 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 22:18:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.20_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/SRX9067217/SRX9067217.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067217/SRX9067217.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling