Job ID = 14520245 SRX = SRX9346317 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4950654 spots for SRR12880355/SRR12880355.sra Written 4950654 spots for SRR12880355/SRR12880355.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: 00:04:31 4950654 reads; of these: 4950654 (100.00%) were paired; of these: 149928 (3.03%) aligned concordantly 0 times 4337785 (87.62%) aligned concordantly exactly 1 time 462941 (9.35%) aligned concordantly >1 times ---- 149928 pairs aligned concordantly 0 times; of these: 69278 (46.21%) aligned discordantly 1 time ---- 80650 pairs aligned 0 times concordantly or discordantly; of these: 161300 mates make up the pairs; of these: 95336 (59.10%) aligned 0 times 45674 (28.32%) aligned exactly 1 time 20290 (12.58%) aligned >1 times 99.04% overall alignment rate Time searching: 00:04:31 Overall time: 00:04:31 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] 372573 / 4848912 = 0.0768 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 18:54:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.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 18:54:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:54:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:54:53: 1000000 INFO @ Sat, 15 Jan 2022 18:55:01: 2000000 INFO @ Sat, 15 Jan 2022 18:55:09: 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 18:55:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.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 18:55:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:55:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:55:17: 4000000 INFO @ Sat, 15 Jan 2022 18:55:25: 1000000 INFO @ Sat, 15 Jan 2022 18:55:26: 5000000 INFO @ Sat, 15 Jan 2022 18:55:35: 2000000 INFO @ Sat, 15 Jan 2022 18:55:35: 6000000 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 18:55:44: 7000000 INFO @ Sat, 15 Jan 2022 18:55:44: 3000000 INFO @ Sat, 15 Jan 2022 18:55:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.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 18:55:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:55:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:55:54: 8000000 INFO @ Sat, 15 Jan 2022 18:55:54: 1000000 INFO @ Sat, 15 Jan 2022 18:55:55: 4000000 INFO @ Sat, 15 Jan 2022 18:56:02: 2000000 INFO @ Sat, 15 Jan 2022 18:56:03: 9000000 INFO @ Sat, 15 Jan 2022 18:56:03: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 18:56:03: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 18:56:03: #1 total tags in treatment: 4428718 INFO @ Sat, 15 Jan 2022 18:56:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:56:03: #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 18:56:03: #1 tags after filtering in treatment: 3075594 INFO @ Sat, 15 Jan 2022 18:56:03: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 18:56:03: #1 finished! INFO @ Sat, 15 Jan 2022 18:56:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:56:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:56:04: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 18:56:04: Too few paired peaks (17) 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 18:56:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.05_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/SRX9346317/SRX9346317.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:56:05: 5000000 INFO @ Sat, 15 Jan 2022 18:56:11: 3000000 INFO @ Sat, 15 Jan 2022 18:56:14: 6000000 INFO @ Sat, 15 Jan 2022 18:56:20: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:56:24: 7000000 INFO @ Sat, 15 Jan 2022 18:56:28: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:56:34: 8000000 INFO @ Sat, 15 Jan 2022 18:56:37: 6000000 INFO @ Sat, 15 Jan 2022 18:56:43: 9000000 INFO @ Sat, 15 Jan 2022 18:56:44: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 18:56:44: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 18:56:44: #1 total tags in treatment: 4428718 INFO @ Sat, 15 Jan 2022 18:56:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:56:44: #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 18:56:44: #1 tags after filtering in treatment: 3075594 INFO @ Sat, 15 Jan 2022 18:56:44: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 18:56:44: #1 finished! INFO @ Sat, 15 Jan 2022 18:56:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:56:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:56:44: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 18:56:44: Too few paired peaks (17) 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 18:56:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.10_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/SRX9346317/SRX9346317.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:56:45: 7000000 INFO @ Sat, 15 Jan 2022 18:56:52: 8000000 INFO @ Sat, 15 Jan 2022 18:56:59: 9000000 INFO @ Sat, 15 Jan 2022 18:56:59: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 18:56:59: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 18:56:59: #1 total tags in treatment: 4428718 INFO @ Sat, 15 Jan 2022 18:56:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:56:59: #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 18:56:59: #1 tags after filtering in treatment: 3075594 INFO @ Sat, 15 Jan 2022 18:56:59: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 18:56:59: #1 finished! INFO @ Sat, 15 Jan 2022 18:56:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:56:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:56:59: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 18:56:59: Too few paired peaks (17) 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 18:56:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.20_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/SRX9346317/SRX9346317.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346317/SRX9346317.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling