Job ID = 14521768 SRX = SRX9399178 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7295174 spots for SRR12935459/SRR12935459.sra Written 7295174 spots for SRR12935459/SRR12935459.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: 00:06:37 7295174 reads; of these: 7295174 (100.00%) were paired; of these: 1296250 (17.77%) aligned concordantly 0 times 4760576 (65.26%) aligned concordantly exactly 1 time 1238348 (16.97%) aligned concordantly >1 times ---- 1296250 pairs aligned concordantly 0 times; of these: 94101 (7.26%) aligned discordantly 1 time ---- 1202149 pairs aligned 0 times concordantly or discordantly; of these: 2404298 mates make up the pairs; of these: 2149751 (89.41%) aligned 0 times 174488 (7.26%) aligned exactly 1 time 80059 (3.33%) aligned >1 times 85.27% overall alignment rate Time searching: 00:06:37 Overall time: 00:06:37 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] 1884393 / 6062251 = 0.3108 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 21:44:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.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 21:44:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:44:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:44:40: 1000000 INFO @ Sat, 15 Jan 2022 21:44:48: 2000000 INFO @ Sat, 15 Jan 2022 21:44:55: 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 21:45:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.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 21:45:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:45:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:45:03: 4000000 INFO @ Sat, 15 Jan 2022 21:45:08: 1000000 INFO @ Sat, 15 Jan 2022 21:45:11: 5000000 INFO @ Sat, 15 Jan 2022 21:45:15: 2000000 INFO @ Sat, 15 Jan 2022 21:45:19: 6000000 INFO @ Sat, 15 Jan 2022 21:45:21: 3000000 INFO @ Sat, 15 Jan 2022 21:45:27: 7000000 INFO @ Sat, 15 Jan 2022 21:45:28: 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 21:45:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.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 21:45:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:45:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:45:34: 8000000 INFO @ Sat, 15 Jan 2022 21:45:35: 5000000 INFO @ Sat, 15 Jan 2022 21:45:40: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:45:40: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:45:40: #1 total tags in treatment: 4125591 INFO @ Sat, 15 Jan 2022 21:45:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:45:40: #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 21:45:40: #1 tags after filtering in treatment: 2800999 INFO @ Sat, 15 Jan 2022 21:45:40: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:45:40: #1 finished! INFO @ Sat, 15 Jan 2022 21:45:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:45:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:45:40: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:45:40: 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 21:45:40: Process for pairing-model is terminated! INFO @ Sat, 15 Jan 2022 21:45:40: 1000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.05_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/SRX9399178/SRX9399178.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:45:42: 6000000 INFO @ Sat, 15 Jan 2022 21:45:48: 2000000 INFO @ Sat, 15 Jan 2022 21:45:49: 7000000 INFO @ Sat, 15 Jan 2022 21:45:56: 3000000 INFO @ Sat, 15 Jan 2022 21:45:57: 8000000 INFO @ Sat, 15 Jan 2022 21:46:01: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:46:01: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:46:01: #1 total tags in treatment: 4125591 INFO @ Sat, 15 Jan 2022 21:46:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:01: #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 21:46:02: #1 tags after filtering in treatment: 2800999 INFO @ Sat, 15 Jan 2022 21:46:02: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:46:02: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:02: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:02: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:46:02: 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 21:46:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.10_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/SRX9399178/SRX9399178.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:46:04: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:46:12: 5000000 INFO @ Sat, 15 Jan 2022 21:46:19: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:46:25: 7000000 INFO @ Sat, 15 Jan 2022 21:46:32: 8000000 INFO @ Sat, 15 Jan 2022 21:46:37: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:46:37: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:46:37: #1 total tags in treatment: 4125591 INFO @ Sat, 15 Jan 2022 21:46:37: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:37: #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 21:46:37: #1 tags after filtering in treatment: 2800999 INFO @ Sat, 15 Jan 2022 21:46:37: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:46:37: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:37: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:37: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:46:37: 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 21:46:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399178/SRX9399178.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling