Job ID = 14521735 SRX = SRX9399165 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6568230 spots for SRR12935446/SRR12935446.sra Written 6568230 spots for SRR12935446/SRR12935446.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: 00:02:52 6568230 reads; of these: 6568230 (100.00%) were paired; of these: 731653 (11.14%) aligned concordantly 0 times 5160317 (78.56%) aligned concordantly exactly 1 time 676260 (10.30%) aligned concordantly >1 times ---- 731653 pairs aligned concordantly 0 times; of these: 82186 (11.23%) aligned discordantly 1 time ---- 649467 pairs aligned 0 times concordantly or discordantly; of these: 1298934 mates make up the pairs; of these: 1106944 (85.22%) aligned 0 times 148276 (11.42%) aligned exactly 1 time 43714 (3.37%) aligned >1 times 91.57% overall alignment rate Time searching: 00:02:52 Overall time: 00:02:52 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_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] 1259543 / 5888182 = 0.2139 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 21:36:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.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 21:36:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:36:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:36:39: 1000000 INFO @ Sat, 15 Jan 2022 21:36:44: 2000000 INFO @ Sat, 15 Jan 2022 21:36:48: 3000000 INFO @ Sat, 15 Jan 2022 21:36:53: 4000000 INFO @ Sat, 15 Jan 2022 21:36:58: 5000000 INFO @ Sat, 15 Jan 2022 21:37:02: 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 21:37:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.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 21:37:04: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:37:04: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:37:08: 7000000 INFO @ Sat, 15 Jan 2022 21:37:10: 1000000 INFO @ Sat, 15 Jan 2022 21:37:13: 8000000 INFO @ Sat, 15 Jan 2022 21:37:17: 2000000 INFO @ Sat, 15 Jan 2022 21:37:19: 9000000 INFO @ Sat, 15 Jan 2022 21:37:22: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:37:22: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:37:22: #1 total tags in treatment: 4580513 INFO @ Sat, 15 Jan 2022 21:37:22: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:37:22: #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 21:37:22: #1 tags after filtering in treatment: 3141962 INFO @ Sat, 15 Jan 2022 21:37:22: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:37:22: #1 finished! INFO @ Sat, 15 Jan 2022 21:37:22: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:37:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:37:22: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:37:22: 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 21:37:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.05_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/SRX9399165/SRX9399165.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:37:23: 3000000 INFO @ Sat, 15 Jan 2022 21:37:29: 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 21:37:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.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 21:37:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:37:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:37:34: 5000000 INFO @ Sat, 15 Jan 2022 21:37:40: 1000000 INFO @ Sat, 15 Jan 2022 21:37:41: 6000000 INFO @ Sat, 15 Jan 2022 21:37:46: 2000000 INFO @ Sat, 15 Jan 2022 21:37:47: 7000000 INFO @ Sat, 15 Jan 2022 21:37:52: 3000000 INFO @ Sat, 15 Jan 2022 21:37:53: 8000000 INFO @ Sat, 15 Jan 2022 21:37:58: 4000000 INFO @ Sat, 15 Jan 2022 21:37:59: 9000000 INFO @ Sat, 15 Jan 2022 21:38:02: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:38:02: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:38:02: #1 total tags in treatment: 4580513 INFO @ Sat, 15 Jan 2022 21:38:02: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:38:02: #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 21:38:03: #1 tags after filtering in treatment: 3141962 INFO @ Sat, 15 Jan 2022 21:38:03: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:38:03: #1 finished! INFO @ Sat, 15 Jan 2022 21:38:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:38:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:38:03: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:38:03: 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 21:38:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.10_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/SRX9399165/SRX9399165.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:38:04: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:38:09: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:38:15: 7000000 INFO @ Sat, 15 Jan 2022 21:38:20: 8000000 INFO @ Sat, 15 Jan 2022 21:38:25: 9000000 INFO @ Sat, 15 Jan 2022 21:38:28: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:38:28: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:38:28: #1 total tags in treatment: 4580513 INFO @ Sat, 15 Jan 2022 21:38:28: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:38:28: #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 21:38:28: #1 tags after filtering in treatment: 3141962 INFO @ Sat, 15 Jan 2022 21:38:28: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:38:28: #1 finished! INFO @ Sat, 15 Jan 2022 21:38:28: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:38:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:38:28: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:38:28: 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 21:38:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.20_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/SRX9399165/SRX9399165.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399165/SRX9399165.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling