Job ID = 14521114 SRX = SRX10828613 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8085928 spots for SRR14480438/SRR14480438.sra Written 8085928 spots for SRR14480438/SRR14480438.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: 00:03:41 8085928 reads; of these: 8085928 (100.00%) were paired; of these: 2604952 (32.22%) aligned concordantly 0 times 4652583 (57.54%) aligned concordantly exactly 1 time 828393 (10.24%) aligned concordantly >1 times ---- 2604952 pairs aligned concordantly 0 times; of these: 68774 (2.64%) aligned discordantly 1 time ---- 2536178 pairs aligned 0 times concordantly or discordantly; of these: 5072356 mates make up the pairs; of these: 4947662 (97.54%) aligned 0 times 85012 (1.68%) aligned exactly 1 time 39682 (0.78%) aligned >1 times 69.41% overall alignment rate Time searching: 00:03:41 Overall time: 00:03:41 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] 1504254 / 5534781 = 0.2718 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 20:35:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.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 20:35:28: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:35:28: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:35:33: 1000000 INFO @ Sat, 15 Jan 2022 20:35:37: 2000000 INFO @ Sat, 15 Jan 2022 20:35:42: 3000000 INFO @ Sat, 15 Jan 2022 20:35:46: 4000000 INFO @ Sat, 15 Jan 2022 20:35:51: 5000000 INFO @ Sat, 15 Jan 2022 20:35:55: 6000000 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 20:35:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.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 20:35:58: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:35:58: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:35:59: 7000000 INFO @ Sat, 15 Jan 2022 20:36:04: 1000000 INFO @ Sat, 15 Jan 2022 20:36:04: 8000000 INFO @ Sat, 15 Jan 2022 20:36:05: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:36:05: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:36:05: #1 total tags in treatment: 3983931 INFO @ Sat, 15 Jan 2022 20:36:05: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:36:05: #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 20:36:06: #1 tags after filtering in treatment: 2790173 INFO @ Sat, 15 Jan 2022 20:36:06: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 20:36:06: #1 finished! INFO @ Sat, 15 Jan 2022 20:36:06: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:36:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:36:06: #2 number of paired peaks: 22 WARNING @ Sat, 15 Jan 2022 20:36:06: Too few paired peaks (22) 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 20:36:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.05_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/SRX10828613/SRX10828613.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:36:09: 2000000 INFO @ Sat, 15 Jan 2022 20:36:15: 3000000 INFO @ Sat, 15 Jan 2022 20:36:20: 4000000 INFO @ Sat, 15 Jan 2022 20:36:25: 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 20:36:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.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 20:36:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:36:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:36:31: 6000000 INFO @ Sat, 15 Jan 2022 20:36:34: 1000000 INFO @ Sat, 15 Jan 2022 20:36:37: 7000000 INFO @ Sat, 15 Jan 2022 20:36:39: 2000000 INFO @ Sat, 15 Jan 2022 20:36:42: 8000000 INFO @ Sat, 15 Jan 2022 20:36:43: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:36:43: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:36:43: #1 total tags in treatment: 3983931 INFO @ Sat, 15 Jan 2022 20:36:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:36:43: #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 20:36:44: #1 tags after filtering in treatment: 2790173 INFO @ Sat, 15 Jan 2022 20:36:44: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 20:36:44: #1 finished! INFO @ Sat, 15 Jan 2022 20:36:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:36:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:36:44: #2 number of paired peaks: 22 WARNING @ Sat, 15 Jan 2022 20:36:44: Too few paired peaks (22) 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 20:36:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.10_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/SRX10828613/SRX10828613.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:36:44: 3000000 INFO @ Sat, 15 Jan 2022 20:36:49: 4000000 INFO @ Sat, 15 Jan 2022 20:36:54: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:36:58: 6000000 INFO @ Sat, 15 Jan 2022 20:37:03: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:37:08: 8000000 INFO @ Sat, 15 Jan 2022 20:37:09: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:37:09: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:37:09: #1 total tags in treatment: 3983931 INFO @ Sat, 15 Jan 2022 20:37:09: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:37:09: #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 20:37:09: #1 tags after filtering in treatment: 2790173 INFO @ Sat, 15 Jan 2022 20:37:09: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 20:37:09: #1 finished! INFO @ Sat, 15 Jan 2022 20:37:09: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:37:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:37:09: #2 number of paired peaks: 22 WARNING @ Sat, 15 Jan 2022 20:37:09: Too few paired peaks (22) 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 20:37:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.20_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/SRX10828613/SRX10828613.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828613/SRX10828613.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling