Job ID = 14521835 SRX = SRX9399088 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 10251883 spots for SRR12935369/SRR12935369.sra Written 10251883 spots for SRR12935369/SRR12935369.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: 00:04:15 10251883 reads; of these: 10251883 (100.00%) were paired; of these: 682954 (6.66%) aligned concordantly 0 times 7912259 (77.18%) aligned concordantly exactly 1 time 1656670 (16.16%) aligned concordantly >1 times ---- 682954 pairs aligned concordantly 0 times; of these: 113318 (16.59%) aligned discordantly 1 time ---- 569636 pairs aligned 0 times concordantly or discordantly; of these: 1139272 mates make up the pairs; of these: 794212 (69.71%) aligned 0 times 251501 (22.08%) aligned exactly 1 time 93559 (8.21%) aligned >1 times 96.13% overall alignment rate Time searching: 00:04:15 Overall time: 00:04:15 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] 1834909 / 9660054 = 0.1899 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 21:49:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.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 21:49:30: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:49:30: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:49:35: 1000000 INFO @ Sat, 15 Jan 2022 21:49:39: 2000000 INFO @ Sat, 15 Jan 2022 21:49:44: 3000000 INFO @ Sat, 15 Jan 2022 21:49:48: 4000000 INFO @ Sat, 15 Jan 2022 21:49:53: 5000000 INFO @ Sat, 15 Jan 2022 21:49:57: 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 21:50:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.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 21:50:00: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:50:00: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:50:02: 7000000 INFO @ Sat, 15 Jan 2022 21:50:06: 1000000 INFO @ Sat, 15 Jan 2022 21:50:08: 8000000 INFO @ Sat, 15 Jan 2022 21:50:12: 2000000 INFO @ Sat, 15 Jan 2022 21:50:13: 9000000 INFO @ Sat, 15 Jan 2022 21:50:18: 10000000 INFO @ Sat, 15 Jan 2022 21:50:19: 3000000 INFO @ Sat, 15 Jan 2022 21:50:24: 11000000 INFO @ Sat, 15 Jan 2022 21:50:25: 4000000 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 21:50:29: 12000000 INFO @ Sat, 15 Jan 2022 21:50:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.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 21:50:30: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:50:30: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:50:31: 5000000 INFO @ Sat, 15 Jan 2022 21:50:35: 13000000 INFO @ Sat, 15 Jan 2022 21:50:36: 1000000 INFO @ Sat, 15 Jan 2022 21:50:37: 6000000 INFO @ Sat, 15 Jan 2022 21:50:41: 14000000 INFO @ Sat, 15 Jan 2022 21:50:41: 2000000 INFO @ Sat, 15 Jan 2022 21:50:43: 7000000 INFO @ Sat, 15 Jan 2022 21:50:46: 15000000 INFO @ Sat, 15 Jan 2022 21:50:47: 3000000 INFO @ Sat, 15 Jan 2022 21:50:49: 8000000 INFO @ Sat, 15 Jan 2022 21:50:52: 16000000 INFO @ Sat, 15 Jan 2022 21:50:52: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:50:52: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:50:52: #1 total tags in treatment: 7737928 INFO @ Sat, 15 Jan 2022 21:50:52: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:50:52: #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 21:50:52: #1 tags after filtering in treatment: 4568830 INFO @ Sat, 15 Jan 2022 21:50:52: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 15 Jan 2022 21:50:52: #1 finished! INFO @ Sat, 15 Jan 2022 21:50:52: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:50:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:50:52: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:50:52: 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 21:50:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.05_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/SRX9399088/SRX9399088.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:50:53: 4000000 INFO @ Sat, 15 Jan 2022 21:50:55: 9000000 INFO @ Sat, 15 Jan 2022 21:50:58: 5000000 INFO @ Sat, 15 Jan 2022 21:51:01: 10000000 INFO @ Sat, 15 Jan 2022 21:51:04: 6000000 INFO @ Sat, 15 Jan 2022 21:51:07: 11000000 INFO @ Sat, 15 Jan 2022 21:51:09: 7000000 INFO @ Sat, 15 Jan 2022 21:51:13: 12000000 INFO @ Sat, 15 Jan 2022 21:51:15: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:51:19: 13000000 INFO @ Sat, 15 Jan 2022 21:51:21: 9000000 INFO @ Sat, 15 Jan 2022 21:51:25: 14000000 INFO @ Sat, 15 Jan 2022 21:51:26: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:51:31: 15000000 INFO @ Sat, 15 Jan 2022 21:51:32: 11000000 INFO @ Sat, 15 Jan 2022 21:51:37: 16000000 INFO @ Sat, 15 Jan 2022 21:51:37: 12000000 INFO @ Sat, 15 Jan 2022 21:51:37: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:51:37: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:51:37: #1 total tags in treatment: 7737928 INFO @ Sat, 15 Jan 2022 21:51:37: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:51:37: #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 21:51:37: #1 tags after filtering in treatment: 4568830 INFO @ Sat, 15 Jan 2022 21:51:37: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 15 Jan 2022 21:51:37: #1 finished! INFO @ Sat, 15 Jan 2022 21:51:37: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:51:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:51:38: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:51:38: 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 21:51:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.10_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/SRX9399088/SRX9399088.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:51:42: 13000000 INFO @ Sat, 15 Jan 2022 21:51:47: 14000000 INFO @ Sat, 15 Jan 2022 21:51:52: 15000000 INFO @ Sat, 15 Jan 2022 21:51:57: 16000000 INFO @ Sat, 15 Jan 2022 21:51:58: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:51:58: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:51:58: #1 total tags in treatment: 7737928 INFO @ Sat, 15 Jan 2022 21:51:58: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:51:58: #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 21:51:58: #1 tags after filtering in treatment: 4568830 INFO @ Sat, 15 Jan 2022 21:51:58: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 15 Jan 2022 21:51:58: #1 finished! INFO @ Sat, 15 Jan 2022 21:51:58: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:51:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:51:58: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:51:58: 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 21:51:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.20_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/SRX9399088/SRX9399088.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399088/SRX9399088.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling