Job ID = 12531677 SRX = SRX4555049 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7654335 spots for SRR7696747/SRR7696747.sra Written 7654335 spots for SRR7696747/SRR7696747.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: 00:12:08 7654335 reads; of these: 7654335 (100.00%) were paired; of these: 393565 (5.14%) aligned concordantly 0 times 4334946 (56.63%) aligned concordantly exactly 1 time 2925824 (38.22%) aligned concordantly >1 times ---- 393565 pairs aligned concordantly 0 times; of these: 30630 (7.78%) aligned discordantly 1 time ---- 362935 pairs aligned 0 times concordantly or discordantly; of these: 725870 mates make up the pairs; of these: 566627 (78.06%) aligned 0 times 91740 (12.64%) aligned exactly 1 time 67503 (9.30%) aligned >1 times 96.30% overall alignment rate Time searching: 00:12:08 Overall time: 00:12:08 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 12 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] 1105358 / 3681072 = 0.3003 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:23:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.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, 17 Apr 2021 09:23:37: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:23:37: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:23:46: 1000000 INFO @ Sat, 17 Apr 2021 09:23:56: 2000000 INFO @ Sat, 17 Apr 2021 09:24:05: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:24:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.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, 17 Apr 2021 09:24:07: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:24:07: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:24:15: 4000000 INFO @ Sat, 17 Apr 2021 09:24:18: 1000000 INFO @ Sat, 17 Apr 2021 09:24:25: 5000000 INFO @ Sat, 17 Apr 2021 09:24:29: 2000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:24:36: 6000000 INFO @ Sat, 17 Apr 2021 09:24:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.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, 17 Apr 2021 09:24:37: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:24:37: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:24:39: 3000000 INFO @ Sat, 17 Apr 2021 09:24:46: 7000000 INFO @ Sat, 17 Apr 2021 09:24:47: 1000000 INFO @ Sat, 17 Apr 2021 09:24:50: 4000000 INFO @ Sat, 17 Apr 2021 09:24:56: 8000000 INFO @ Sat, 17 Apr 2021 09:24:58: 2000000 INFO @ Sat, 17 Apr 2021 09:25:01: 5000000 INFO @ Sat, 17 Apr 2021 09:25:06: 9000000 INFO @ Sat, 17 Apr 2021 09:25:08: 3000000 INFO @ Sat, 17 Apr 2021 09:25:12: 6000000 INFO @ Sat, 17 Apr 2021 09:25:17: 10000000 INFO @ Sat, 17 Apr 2021 09:25:18: 4000000 INFO @ Sat, 17 Apr 2021 09:25:22: 7000000 INFO @ Sat, 17 Apr 2021 09:25:28: 11000000 INFO @ Sat, 17 Apr 2021 09:25:28: 5000000 INFO @ Sat, 17 Apr 2021 09:25:32: 8000000 INFO @ Sat, 17 Apr 2021 09:25:38: 6000000 INFO @ Sat, 17 Apr 2021 09:25:38: 12000000 INFO @ Sat, 17 Apr 2021 09:25:42: 9000000 INFO @ Sat, 17 Apr 2021 09:25:44: #1 tag size is determined as 83 bps INFO @ Sat, 17 Apr 2021 09:25:44: #1 tag size = 83 INFO @ Sat, 17 Apr 2021 09:25:44: #1 total tags in treatment: 6156539 INFO @ Sat, 17 Apr 2021 09:25:44: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:25:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:25:44: #1 tags after filtering in treatment: 2150763 INFO @ Sat, 17 Apr 2021 09:25:44: #1 Redundant rate of treatment: 0.65 INFO @ Sat, 17 Apr 2021 09:25:44: #1 finished! INFO @ Sat, 17 Apr 2021 09:25:44: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:25:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:25:44: #2 number of paired peaks: 85 WARNING @ Sat, 17 Apr 2021 09:25:44: Too few paired peaks (85) 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, 17 Apr 2021 09:25:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.05_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/SRX4555049/SRX4555049.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:25:47: 7000000 INFO @ Sat, 17 Apr 2021 09:25:51: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:25:56: 8000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:26:01: 11000000 INFO @ Sat, 17 Apr 2021 09:26:05: 9000000 INFO @ Sat, 17 Apr 2021 09:26:11: 12000000 INFO @ Sat, 17 Apr 2021 09:26:14: 10000000 INFO @ Sat, 17 Apr 2021 09:26:16: #1 tag size is determined as 83 bps INFO @ Sat, 17 Apr 2021 09:26:16: #1 tag size = 83 INFO @ Sat, 17 Apr 2021 09:26:16: #1 total tags in treatment: 6156539 INFO @ Sat, 17 Apr 2021 09:26:16: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:26:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:26:17: #1 tags after filtering in treatment: 2150763 INFO @ Sat, 17 Apr 2021 09:26:17: #1 Redundant rate of treatment: 0.65 INFO @ Sat, 17 Apr 2021 09:26:17: #1 finished! INFO @ Sat, 17 Apr 2021 09:26:17: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:26:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:26:17: #2 number of paired peaks: 85 WARNING @ Sat, 17 Apr 2021 09:26:17: Too few paired peaks (85) 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, 17 Apr 2021 09:26:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.10_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/SRX4555049/SRX4555049.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:26:24: 11000000 INFO @ Sat, 17 Apr 2021 09:26:33: 12000000 INFO @ Sat, 17 Apr 2021 09:26:38: #1 tag size is determined as 83 bps INFO @ Sat, 17 Apr 2021 09:26:38: #1 tag size = 83 INFO @ Sat, 17 Apr 2021 09:26:38: #1 total tags in treatment: 6156539 INFO @ Sat, 17 Apr 2021 09:26:38: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:26:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:26:39: #1 tags after filtering in treatment: 2150763 INFO @ Sat, 17 Apr 2021 09:26:39: #1 Redundant rate of treatment: 0.65 INFO @ Sat, 17 Apr 2021 09:26:39: #1 finished! INFO @ Sat, 17 Apr 2021 09:26:39: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:26:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:26:39: #2 number of paired peaks: 85 WARNING @ Sat, 17 Apr 2021 09:26:39: Too few paired peaks (85) 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, 17 Apr 2021 09:26:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.20_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/SRX4555049/SRX4555049.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555049/SRX4555049.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling