Job ID = 14521628 SRX = SRX9399010 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5044716 spots for SRR12935292/SRR12935292.sra Written 5044716 spots for SRR12935292/SRR12935292.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: 00:03:16 5044716 reads; of these: 5044716 (100.00%) were paired; of these: 503184 (9.97%) aligned concordantly 0 times 3961628 (78.53%) aligned concordantly exactly 1 time 579904 (11.50%) aligned concordantly >1 times ---- 503184 pairs aligned concordantly 0 times; of these: 159770 (31.75%) aligned discordantly 1 time ---- 343414 pairs aligned 0 times concordantly or discordantly; of these: 686828 mates make up the pairs; of these: 437131 (63.64%) aligned 0 times 180356 (26.26%) aligned exactly 1 time 69341 (10.10%) aligned >1 times 95.67% overall alignment rate Time searching: 00:03:16 Overall time: 00:03:16 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] 378787 / 4623483 = 0.0819 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 21:21:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.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 21:21:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:21:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:21:38: 1000000 INFO @ Sat, 15 Jan 2022 21:21:44: 2000000 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 21:21:50: 3000000 INFO @ Sat, 15 Jan 2022 21:21:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.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 21:21:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:21:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:21:56: 4000000 INFO @ Sat, 15 Jan 2022 21:21:58: 1000000 INFO @ Sat, 15 Jan 2022 21:22:01: 5000000 INFO @ Sat, 15 Jan 2022 21:22:03: 2000000 INFO @ Sat, 15 Jan 2022 21:22:07: 6000000 INFO @ Sat, 15 Jan 2022 21:22:09: 3000000 INFO @ Sat, 15 Jan 2022 21:22:12: 7000000 INFO @ Sat, 15 Jan 2022 21:22:14: 4000000 INFO @ Sat, 15 Jan 2022 21:22:17: 8000000 INFO @ Sat, 15 Jan 2022 21:22:19: 5000000 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 21:22:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.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 21:22:22: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:22:22: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:22:24: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:22:24: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:22:24: #1 total tags in treatment: 4164384 INFO @ Sat, 15 Jan 2022 21:22:24: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:22:24: #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 21:22:24: #1 tags after filtering in treatment: 2906863 INFO @ Sat, 15 Jan 2022 21:22:24: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:22:24: #1 finished! INFO @ Sat, 15 Jan 2022 21:22:24: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:22:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:22:24: #2 number of paired peaks: 4 WARNING @ Sat, 15 Jan 2022 21:22:24: Too few paired peaks (4) 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 21:22:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.05_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/SRX9399010/SRX9399010.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:22:24: 6000000 INFO @ Sat, 15 Jan 2022 21:22:28: 1000000 INFO @ Sat, 15 Jan 2022 21:22:29: 7000000 INFO @ Sat, 15 Jan 2022 21:22:36: 2000000 INFO @ Sat, 15 Jan 2022 21:22:36: 8000000 INFO @ Sat, 15 Jan 2022 21:22:41: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:22:41: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:22:41: #1 total tags in treatment: 4164384 INFO @ Sat, 15 Jan 2022 21:22:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:22:41: #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 21:22:41: #1 tags after filtering in treatment: 2906863 INFO @ Sat, 15 Jan 2022 21:22:41: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:22:41: #1 finished! INFO @ Sat, 15 Jan 2022 21:22:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:22:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:22:41: 3000000 INFO @ Sat, 15 Jan 2022 21:22:41: #2 number of paired peaks: 4 WARNING @ Sat, 15 Jan 2022 21:22:41: Too few paired peaks (4) 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 21:22:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.10_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/SRX9399010/SRX9399010.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:22:46: 4000000 INFO @ Sat, 15 Jan 2022 21:22:51: 5000000 INFO @ Sat, 15 Jan 2022 21:22:56: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:23:01: 7000000 INFO @ Sat, 15 Jan 2022 21:23:06: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:23:10: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:23:10: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:23:10: #1 total tags in treatment: 4164384 INFO @ Sat, 15 Jan 2022 21:23:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:23:10: #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 21:23:10: #1 tags after filtering in treatment: 2906863 INFO @ Sat, 15 Jan 2022 21:23:10: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:23:10: #1 finished! INFO @ Sat, 15 Jan 2022 21:23:10: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:23:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:23:11: #2 number of paired peaks: 4 WARNING @ Sat, 15 Jan 2022 21:23:11: Too few paired peaks (4) 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 21:23:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.20_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/SRX9399010/SRX9399010.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399010/SRX9399010.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling