Job ID = 14521858 SRX = SRX9399099 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8349589 spots for SRR12935380/SRR12935380.sra Written 8349589 spots for SRR12935380/SRR12935380.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: 00:13:15 8349589 reads; of these: 8349589 (100.00%) were paired; of these: 6895448 (82.58%) aligned concordantly 0 times 1137958 (13.63%) aligned concordantly exactly 1 time 316183 (3.79%) aligned concordantly >1 times ---- 6895448 pairs aligned concordantly 0 times; of these: 2303917 (33.41%) aligned discordantly 1 time ---- 4591531 pairs aligned 0 times concordantly or discordantly; of these: 9183062 mates make up the pairs; of these: 7315755 (79.67%) aligned 0 times 324620 (3.53%) aligned exactly 1 time 1542687 (16.80%) aligned >1 times 56.19% overall alignment rate Time searching: 00:13:15 Overall time: 00:13:15 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] 821694 / 3699930 = 0.2221 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 22:02:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.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 22:02:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:02:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:02:37: 1000000 INFO @ Sat, 15 Jan 2022 22:02:45: 2000000 INFO @ Sat, 15 Jan 2022 22:02:53: 3000000 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 22:02:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.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 22:02:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:02:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:03:01: 4000000 INFO @ Sat, 15 Jan 2022 22:03:08: 1000000 INFO @ Sat, 15 Jan 2022 22:03:10: 5000000 INFO @ Sat, 15 Jan 2022 22:03:17: 2000000 INFO @ Sat, 15 Jan 2022 22:03:19: 6000000 INFO @ Sat, 15 Jan 2022 22:03:26: 3000000 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 22:03:27: 7000000 INFO @ Sat, 15 Jan 2022 22:03:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.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 22:03:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:03:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:03:35: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 22:03:35: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 22:03:35: #1 total tags in treatment: 1078188 INFO @ Sat, 15 Jan 2022 22:03:35: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:03:35: #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 22:03:35: #1 tags after filtering in treatment: 878510 INFO @ Sat, 15 Jan 2022 22:03:35: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 22:03:35: #1 finished! INFO @ Sat, 15 Jan 2022 22:03:35: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:03:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:03:35: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 22:03:35: Too few paired peaks (30) 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 22:03:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.05_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/SRX9399099/SRX9399099.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:03:35: 4000000 INFO @ Sat, 15 Jan 2022 22:03:38: 1000000 INFO @ Sat, 15 Jan 2022 22:03:44: 5000000 INFO @ Sat, 15 Jan 2022 22:03:47: 2000000 INFO @ Sat, 15 Jan 2022 22:03:53: 6000000 INFO @ Sat, 15 Jan 2022 22:03:57: 3000000 INFO @ Sat, 15 Jan 2022 22:04:03: 7000000 INFO @ Sat, 15 Jan 2022 22:04:07: 4000000 INFO @ Sat, 15 Jan 2022 22:04:10: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 22:04:10: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 22:04:10: #1 total tags in treatment: 1078188 INFO @ Sat, 15 Jan 2022 22:04:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:04:10: #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 22:04:10: #1 tags after filtering in treatment: 878510 INFO @ Sat, 15 Jan 2022 22:04:10: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 22:04:10: #1 finished! INFO @ Sat, 15 Jan 2022 22:04:10: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:04:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:04:10: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 22:04:10: Too few paired peaks (30) 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 22:04:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.10_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/SRX9399099/SRX9399099.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:04:16: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:04:25: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:04:34: 7000000 INFO @ Sat, 15 Jan 2022 22:04:40: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 22:04:40: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 22:04:40: #1 total tags in treatment: 1078188 INFO @ Sat, 15 Jan 2022 22:04:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:04:40: #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 22:04:40: #1 tags after filtering in treatment: 878510 INFO @ Sat, 15 Jan 2022 22:04:40: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 22:04:40: #1 finished! INFO @ Sat, 15 Jan 2022 22:04:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:04:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:04:40: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 22:04:40: Too few paired peaks (30) 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 22:04:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.20_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/SRX9399099/SRX9399099.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399099/SRX9399099.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling