Job ID = 14521260 SRX = SRX10468529 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4299955 spots for SRR14094840/SRR14094840.sra Written 4299955 spots for SRR14094840/SRR14094840.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: 00:01:29 4299955 reads; of these: 4299955 (100.00%) were paired; of these: 626431 (14.57%) aligned concordantly 0 times 3090786 (71.88%) aligned concordantly exactly 1 time 582738 (13.55%) aligned concordantly >1 times ---- 626431 pairs aligned concordantly 0 times; of these: 18091 (2.89%) aligned discordantly 1 time ---- 608340 pairs aligned 0 times concordantly or discordantly; of these: 1216680 mates make up the pairs; of these: 1149003 (94.44%) aligned 0 times 48046 (3.95%) aligned exactly 1 time 19631 (1.61%) aligned >1 times 86.64% overall alignment rate Time searching: 00:01:29 Overall time: 00:01:29 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_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] 147718 / 3675151 = 0.0402 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 20:47:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.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 20:47:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:47:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:47:39: 1000000 INFO @ Sat, 15 Jan 2022 20:47:44: 2000000 INFO @ Sat, 15 Jan 2022 20:47:50: 3000000 INFO @ Sat, 15 Jan 2022 20:47:55: 4000000 INFO @ Sat, 15 Jan 2022 20:48:00: 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 20:48:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.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 20:48:04: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:48:04: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:48:06: 6000000 INFO @ Sat, 15 Jan 2022 20:48:09: 1000000 INFO @ Sat, 15 Jan 2022 20:48:12: 7000000 INFO @ Sat, 15 Jan 2022 20:48:12: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:48:12: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:48:12: #1 total tags in treatment: 3525860 INFO @ Sat, 15 Jan 2022 20:48:12: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:48:12: #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 20:48:13: #1 tags after filtering in treatment: 3000129 INFO @ Sat, 15 Jan 2022 20:48:13: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 20:48:13: #1 finished! INFO @ Sat, 15 Jan 2022 20:48:13: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:48:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:48:13: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 20:48:13: Too few paired peaks (32) 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 20:48:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.05_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/SRX10468529/SRX10468529.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:48:15: 2000000 INFO @ Sat, 15 Jan 2022 20:48:21: 3000000 INFO @ Sat, 15 Jan 2022 20:48:26: 4000000 INFO @ Sat, 15 Jan 2022 20:48:31: 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 20:48:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.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 20:48:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:48:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:48:37: 6000000 INFO @ Sat, 15 Jan 2022 20:48:40: 1000000 INFO @ Sat, 15 Jan 2022 20:48:43: 7000000 INFO @ Sat, 15 Jan 2022 20:48:44: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:48:44: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:48:44: #1 total tags in treatment: 3525860 INFO @ Sat, 15 Jan 2022 20:48:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:48:44: #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 20:48:44: #1 tags after filtering in treatment: 3000129 INFO @ Sat, 15 Jan 2022 20:48:44: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 20:48:44: #1 finished! INFO @ Sat, 15 Jan 2022 20:48:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:48:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:48:44: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 20:48:44: Too few paired peaks (32) 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 20:48:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.10_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/SRX10468529/SRX10468529.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:48:45: 2000000 INFO @ Sat, 15 Jan 2022 20:48:51: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:48:56: 4000000 INFO @ Sat, 15 Jan 2022 20:49:02: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:49:07: 6000000 INFO @ Sat, 15 Jan 2022 20:49:13: 7000000 INFO @ Sat, 15 Jan 2022 20:49:13: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:49:13: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:49:13: #1 total tags in treatment: 3525860 INFO @ Sat, 15 Jan 2022 20:49:13: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:49:13: #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 20:49:14: #1 tags after filtering in treatment: 3000129 INFO @ Sat, 15 Jan 2022 20:49:14: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 20:49:14: #1 finished! INFO @ Sat, 15 Jan 2022 20:49:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:49:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:49:14: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 20:49:14: Too few paired peaks (32) 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 20:49:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.20_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/SRX10468529/SRX10468529.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468529/SRX10468529.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling