Job ID = 14521694 SRX = SRX9399034 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6483342 spots for SRR12935315/SRR12935315.sra Written 6483342 spots for SRR12935315/SRR12935315.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: 00:04:53 6483342 reads; of these: 6483342 (100.00%) were paired; of these: 1103400 (17.02%) aligned concordantly 0 times 4549069 (70.17%) aligned concordantly exactly 1 time 830873 (12.82%) aligned concordantly >1 times ---- 1103400 pairs aligned concordantly 0 times; of these: 160722 (14.57%) aligned discordantly 1 time ---- 942678 pairs aligned 0 times concordantly or discordantly; of these: 1885356 mates make up the pairs; of these: 1648360 (87.43%) aligned 0 times 151954 (8.06%) aligned exactly 1 time 85042 (4.51%) aligned >1 times 87.29% overall alignment rate Time searching: 00:04:53 Overall time: 00:04:53 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] 921887 / 5466551 = 0.1686 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 21:35:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.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 21:35:23: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:35:23: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:35:30: 1000000 INFO @ Sat, 15 Jan 2022 21:35:37: 2000000 INFO @ Sat, 15 Jan 2022 21:35:44: 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 21:35:51: 4000000 INFO @ Sat, 15 Jan 2022 21:35:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.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 21:35:53: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:35:53: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:35:58: 5000000 INFO @ Sat, 15 Jan 2022 21:36:02: 1000000 INFO @ Sat, 15 Jan 2022 21:36:05: 6000000 INFO @ Sat, 15 Jan 2022 21:36:10: 2000000 INFO @ Sat, 15 Jan 2022 21:36:13: 7000000 INFO @ Sat, 15 Jan 2022 21:36:18: 3000000 INFO @ Sat, 15 Jan 2022 21:36:20: 8000000 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 21:36:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.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 21:36:23: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:36:23: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:36:27: 4000000 INFO @ Sat, 15 Jan 2022 21:36:27: 9000000 INFO @ Sat, 15 Jan 2022 21:36:31: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 21:36:31: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 21:36:31: #1 total tags in treatment: 4465512 INFO @ Sat, 15 Jan 2022 21:36:31: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:36:31: #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 21:36:31: #1 tags after filtering in treatment: 3055990 INFO @ Sat, 15 Jan 2022 21:36:31: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:36:31: #1 finished! INFO @ Sat, 15 Jan 2022 21:36:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:36:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:36:31: #2 number of paired peaks: 16 WARNING @ Sat, 15 Jan 2022 21:36:31: Too few paired peaks (16) 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 21:36:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.05_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/SRX9399034/SRX9399034.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:36:32: 1000000 INFO @ Sat, 15 Jan 2022 21:36:35: 5000000 INFO @ Sat, 15 Jan 2022 21:36:41: 2000000 INFO @ Sat, 15 Jan 2022 21:36:44: 6000000 INFO @ Sat, 15 Jan 2022 21:36:49: 3000000 INFO @ Sat, 15 Jan 2022 21:36:53: 7000000 INFO @ Sat, 15 Jan 2022 21:36:58: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:37:02: 8000000 INFO @ Sat, 15 Jan 2022 21:37:07: 5000000 INFO @ Sat, 15 Jan 2022 21:37:10: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:37:14: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 21:37:14: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 21:37:14: #1 total tags in treatment: 4465512 INFO @ Sat, 15 Jan 2022 21:37:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:37:14: #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 21:37:14: #1 tags after filtering in treatment: 3055990 INFO @ Sat, 15 Jan 2022 21:37:14: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:37:14: #1 finished! INFO @ Sat, 15 Jan 2022 21:37:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:37:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:37:14: #2 number of paired peaks: 16 WARNING @ Sat, 15 Jan 2022 21:37:14: Too few paired peaks (16) 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 21:37:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.10_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/SRX9399034/SRX9399034.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:37:15: 6000000 INFO @ Sat, 15 Jan 2022 21:37:24: 7000000 INFO @ Sat, 15 Jan 2022 21:37:32: 8000000 INFO @ Sat, 15 Jan 2022 21:37:41: 9000000 INFO @ Sat, 15 Jan 2022 21:37:44: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 21:37:44: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 21:37:44: #1 total tags in treatment: 4465512 INFO @ Sat, 15 Jan 2022 21:37:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:37:44: #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 21:37:45: #1 tags after filtering in treatment: 3055990 INFO @ Sat, 15 Jan 2022 21:37:45: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:37:45: #1 finished! INFO @ Sat, 15 Jan 2022 21:37:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:37:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:37:45: #2 number of paired peaks: 16 WARNING @ Sat, 15 Jan 2022 21:37:45: Too few paired peaks (16) 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 21:37:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.20_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/SRX9399034/SRX9399034.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399034/SRX9399034.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling