Job ID = 14521205 SRX = SRX8245493 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6890620 spots for SRR11684704/SRR11684704.sra Written 6890620 spots for SRR11684704/SRR11684704.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: 00:03:46 6890620 reads; of these: 6890620 (100.00%) were paired; of these: 3558594 (51.64%) aligned concordantly 0 times 3082222 (44.73%) aligned concordantly exactly 1 time 249804 (3.63%) aligned concordantly >1 times ---- 3558594 pairs aligned concordantly 0 times; of these: 238345 (6.70%) aligned discordantly 1 time ---- 3320249 pairs aligned 0 times concordantly or discordantly; of these: 6640498 mates make up the pairs; of these: 3554674 (53.53%) aligned 0 times 2780967 (41.88%) aligned exactly 1 time 304857 (4.59%) aligned >1 times 74.21% overall alignment rate Time searching: 00:03:46 Overall time: 00:03:46 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] 23393 / 3569744 = 0.0066 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 20:43:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.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 20:43:58: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:43:58: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:44:03: 1000000 INFO @ Sat, 15 Jan 2022 20:44:08: 2000000 INFO @ Sat, 15 Jan 2022 20:44:13: 3000000 INFO @ Sat, 15 Jan 2022 20:44:17: 4000000 INFO @ Sat, 15 Jan 2022 20:44:22: 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 20:44:27: 6000000 INFO @ Sat, 15 Jan 2022 20:44:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.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 20:44:28: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:44:28: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:44:32: 7000000 INFO @ Sat, 15 Jan 2022 20:44:33: 1000000 INFO @ Sat, 15 Jan 2022 20:44:38: 8000000 INFO @ Sat, 15 Jan 2022 20:44:38: 2000000 INFO @ Sat, 15 Jan 2022 20:44:43: 9000000 INFO @ Sat, 15 Jan 2022 20:44:44: 3000000 INFO @ Sat, 15 Jan 2022 20:44:48: 10000000 INFO @ Sat, 15 Jan 2022 20:44:49: 4000000 INFO @ Sat, 15 Jan 2022 20:44:49: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:44:49: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:44:49: #1 total tags in treatment: 3309296 INFO @ Sat, 15 Jan 2022 20:44:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:44:49: #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 20:44:49: #1 tags after filtering in treatment: 2991036 INFO @ Sat, 15 Jan 2022 20:44:49: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 15 Jan 2022 20:44:49: #1 finished! INFO @ Sat, 15 Jan 2022 20:44:49: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:44:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:44:50: #2 number of paired peaks: 10 WARNING @ Sat, 15 Jan 2022 20:44:50: Too few paired peaks (10) 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 20:44:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.05_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/SRX8245493/SRX8245493.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:44:54: 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 20:44:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.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 20:44:58: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:44:58: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:44:59: 6000000 INFO @ Sat, 15 Jan 2022 20:45:03: 1000000 INFO @ Sat, 15 Jan 2022 20:45:05: 7000000 INFO @ Sat, 15 Jan 2022 20:45:09: 2000000 INFO @ Sat, 15 Jan 2022 20:45:10: 8000000 INFO @ Sat, 15 Jan 2022 20:45:14: 3000000 INFO @ Sat, 15 Jan 2022 20:45:15: 9000000 INFO @ Sat, 15 Jan 2022 20:45:19: 4000000 INFO @ Sat, 15 Jan 2022 20:45:21: 10000000 INFO @ Sat, 15 Jan 2022 20:45:21: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:45:21: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:45:21: #1 total tags in treatment: 3309296 INFO @ Sat, 15 Jan 2022 20:45:21: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:45:21: #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 20:45:22: #1 tags after filtering in treatment: 2991036 INFO @ Sat, 15 Jan 2022 20:45:22: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 15 Jan 2022 20:45:22: #1 finished! INFO @ Sat, 15 Jan 2022 20:45:22: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:45:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:45:22: #2 number of paired peaks: 10 WARNING @ Sat, 15 Jan 2022 20:45:22: Too few paired peaks (10) 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 20:45:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.10_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/SRX8245493/SRX8245493.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:45:25: 5000000 INFO @ Sat, 15 Jan 2022 20:45:30: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:45:35: 7000000 INFO @ Sat, 15 Jan 2022 20:45:40: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:45:46: 9000000 INFO @ Sat, 15 Jan 2022 20:45:51: 10000000 INFO @ Sat, 15 Jan 2022 20:45:52: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:45:52: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:45:52: #1 total tags in treatment: 3309296 INFO @ Sat, 15 Jan 2022 20:45:52: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:45:52: #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 20:45:52: #1 tags after filtering in treatment: 2991036 INFO @ Sat, 15 Jan 2022 20:45:52: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 15 Jan 2022 20:45:52: #1 finished! INFO @ Sat, 15 Jan 2022 20:45:52: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:45:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:45:52: #2 number of paired peaks: 10 WARNING @ Sat, 15 Jan 2022 20:45:52: Too few paired peaks (10) 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 20:45:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.20_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/SRX8245493/SRX8245493.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245493/SRX8245493.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling