Job ID = 14521763 SRX = SRX9399173 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8070495 spots for SRR12935454/SRR12935454.sra Written 8070495 spots for SRR12935454/SRR12935454.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: 00:04:29 8070495 reads; of these: 8070495 (100.00%) were paired; of these: 1174815 (14.56%) aligned concordantly 0 times 5966037 (73.92%) aligned concordantly exactly 1 time 929643 (11.52%) aligned concordantly >1 times ---- 1174815 pairs aligned concordantly 0 times; of these: 320017 (27.24%) aligned discordantly 1 time ---- 854798 pairs aligned 0 times concordantly or discordantly; of these: 1709596 mates make up the pairs; of these: 1337349 (78.23%) aligned 0 times 244205 (14.28%) aligned exactly 1 time 128042 (7.49%) aligned >1 times 91.71% overall alignment rate Time searching: 00:04:29 Overall time: 00:04:29 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] 1012140 / 7048838 = 0.1436 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 21:41:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.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 21:41:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:41:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:41:37: 1000000 INFO @ Sat, 15 Jan 2022 21:41:43: 2000000 INFO @ Sat, 15 Jan 2022 21:41:48: 3000000 INFO @ Sat, 15 Jan 2022 21:41:54: 4000000 INFO @ Sat, 15 Jan 2022 21:42:00: 5000000 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 21:42:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.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 21:42:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:42:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:42:06: 6000000 INFO @ Sat, 15 Jan 2022 21:42:06: 1000000 INFO @ Sat, 15 Jan 2022 21:42:10: 2000000 INFO @ Sat, 15 Jan 2022 21:42:12: 7000000 INFO @ Sat, 15 Jan 2022 21:42:14: 3000000 INFO @ Sat, 15 Jan 2022 21:42:18: 8000000 INFO @ Sat, 15 Jan 2022 21:42:19: 4000000 INFO @ Sat, 15 Jan 2022 21:42:23: 5000000 INFO @ Sat, 15 Jan 2022 21:42:24: 9000000 INFO @ Sat, 15 Jan 2022 21:42:27: 6000000 INFO @ Sat, 15 Jan 2022 21:42:29: 10000000 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 21:42:31: 7000000 INFO @ Sat, 15 Jan 2022 21:42:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.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 21:42:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:42:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:42:33: 11000000 INFO @ Sat, 15 Jan 2022 21:42:35: 8000000 INFO @ Sat, 15 Jan 2022 21:42:37: 1000000 INFO @ Sat, 15 Jan 2022 21:42:38: 12000000 INFO @ Sat, 15 Jan 2022 21:42:39: 9000000 INFO @ Sat, 15 Jan 2022 21:42:41: 2000000 INFO @ Sat, 15 Jan 2022 21:42:42: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:42:42: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:42:42: #1 total tags in treatment: 5894134 INFO @ Sat, 15 Jan 2022 21:42:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:42:42: #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 21:42:42: #1 tags after filtering in treatment: 3649087 INFO @ Sat, 15 Jan 2022 21:42:42: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 21:42:42: #1 finished! INFO @ Sat, 15 Jan 2022 21:42:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:42:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:42:42: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:42:42: 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 21:42:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.05_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/SRX9399173/SRX9399173.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:42:44: 10000000 INFO @ Sat, 15 Jan 2022 21:42:46: 3000000 INFO @ Sat, 15 Jan 2022 21:42:48: 11000000 INFO @ Sat, 15 Jan 2022 21:42:51: 4000000 INFO @ Sat, 15 Jan 2022 21:42:52: 12000000 INFO @ Sat, 15 Jan 2022 21:42:55: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:42:55: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:42:55: #1 total tags in treatment: 5894134 INFO @ Sat, 15 Jan 2022 21:42:55: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:42:55: #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 21:42:55: #1 tags after filtering in treatment: 3649087 INFO @ Sat, 15 Jan 2022 21:42:55: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 21:42:55: #1 finished! INFO @ Sat, 15 Jan 2022 21:42:55: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:42:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:42:55: 5000000 INFO @ Sat, 15 Jan 2022 21:42:56: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:42:56: 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 21:42:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.10_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/SRX9399173/SRX9399173.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:43:00: 6000000 INFO @ Sat, 15 Jan 2022 21:43:05: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:43:09: 8000000 INFO @ Sat, 15 Jan 2022 21:43:14: 9000000 INFO @ Sat, 15 Jan 2022 21:43:19: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:43:23: 11000000 INFO @ Sat, 15 Jan 2022 21:43:28: 12000000 INFO @ Sat, 15 Jan 2022 21:43:32: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:43:32: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:43:32: #1 total tags in treatment: 5894134 INFO @ Sat, 15 Jan 2022 21:43:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:43:32: #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 21:43:32: #1 tags after filtering in treatment: 3649087 INFO @ Sat, 15 Jan 2022 21:43:32: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 21:43:32: #1 finished! INFO @ Sat, 15 Jan 2022 21:43:32: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:43:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:43:32: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:43:32: 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 21:43:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.20_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/SRX9399173/SRX9399173.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399173/SRX9399173.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling