Job ID = 14521725 SRX = SRX9399045 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6897212 spots for SRR12935326/SRR12935326.sra Written 6897212 spots for SRR12935326/SRR12935326.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: 00:02:39 6897212 reads; of these: 6897212 (100.00%) were paired; of these: 587697 (8.52%) aligned concordantly 0 times 5452275 (79.05%) aligned concordantly exactly 1 time 857240 (12.43%) aligned concordantly >1 times ---- 587697 pairs aligned concordantly 0 times; of these: 166346 (28.30%) aligned discordantly 1 time ---- 421351 pairs aligned 0 times concordantly or discordantly; of these: 842702 mates make up the pairs; of these: 546436 (64.84%) aligned 0 times 214907 (25.50%) aligned exactly 1 time 81359 (9.65%) aligned >1 times 96.04% overall alignment rate Time searching: 00:02:39 Overall time: 00:02:39 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] 671276 / 6404988 = 0.1048 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 21:34:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.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 21:34:46: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:34:46: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:34:51: 1000000 INFO @ Sat, 15 Jan 2022 21:34:56: 2000000 INFO @ Sat, 15 Jan 2022 21:35:01: 3000000 INFO @ Sat, 15 Jan 2022 21:35:06: 4000000 INFO @ Sat, 15 Jan 2022 21:35:11: 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 21:35:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.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 21:35:16: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:35:16: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:35:16: 6000000 INFO @ Sat, 15 Jan 2022 21:35:21: 1000000 INFO @ Sat, 15 Jan 2022 21:35:22: 7000000 INFO @ Sat, 15 Jan 2022 21:35:26: 2000000 INFO @ Sat, 15 Jan 2022 21:35:27: 8000000 INFO @ Sat, 15 Jan 2022 21:35:32: 3000000 INFO @ Sat, 15 Jan 2022 21:35:33: 9000000 INFO @ Sat, 15 Jan 2022 21:35:37: 4000000 INFO @ Sat, 15 Jan 2022 21:35:39: 10000000 INFO @ Sat, 15 Jan 2022 21:35:43: 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 21:35:44: 11000000 INFO @ Sat, 15 Jan 2022 21:35:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.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 21:35:46: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:35:46: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:35:48: 6000000 INFO @ Sat, 15 Jan 2022 21:35:49: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 21:35:49: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 21:35:49: #1 total tags in treatment: 5640359 INFO @ Sat, 15 Jan 2022 21:35:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:35:49: #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 21:35:49: #1 tags after filtering in treatment: 3606103 INFO @ Sat, 15 Jan 2022 21:35:49: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 15 Jan 2022 21:35:49: #1 finished! INFO @ Sat, 15 Jan 2022 21:35:49: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:35:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:35:50: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:35:50: Too few paired peaks (0) 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 21:35:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.05_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/SRX9399045/SRX9399045.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:35:50: 1000000 INFO @ Sat, 15 Jan 2022 21:35:54: 7000000 INFO @ Sat, 15 Jan 2022 21:35:55: 2000000 INFO @ Sat, 15 Jan 2022 21:35:59: 8000000 INFO @ Sat, 15 Jan 2022 21:36:00: 3000000 INFO @ Sat, 15 Jan 2022 21:36:05: 9000000 INFO @ Sat, 15 Jan 2022 21:36:05: 4000000 INFO @ Sat, 15 Jan 2022 21:36:10: 5000000 INFO @ Sat, 15 Jan 2022 21:36:10: 10000000 INFO @ Sat, 15 Jan 2022 21:36:15: 6000000 INFO @ Sat, 15 Jan 2022 21:36:15: 11000000 INFO @ Sat, 15 Jan 2022 21:36:20: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:36:20: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 21:36:20: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 21:36:20: #1 total tags in treatment: 5640359 INFO @ Sat, 15 Jan 2022 21:36:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:36:20: #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 21:36:21: #1 tags after filtering in treatment: 3606103 INFO @ Sat, 15 Jan 2022 21:36:21: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 15 Jan 2022 21:36:21: #1 finished! INFO @ Sat, 15 Jan 2022 21:36:21: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:36:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:36:21: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:36:21: Too few paired peaks (0) 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 21:36:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.10_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/SRX9399045/SRX9399045.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:36:24: 8000000 INFO @ Sat, 15 Jan 2022 21:36:29: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:36:33: 10000000 INFO @ Sat, 15 Jan 2022 21:36:37: 11000000 INFO @ Sat, 15 Jan 2022 21:36:41: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 21:36:41: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 21:36:41: #1 total tags in treatment: 5640359 INFO @ Sat, 15 Jan 2022 21:36:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:36:41: #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 21:36:41: #1 tags after filtering in treatment: 3606103 INFO @ Sat, 15 Jan 2022 21:36:41: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 15 Jan 2022 21:36:41: #1 finished! INFO @ Sat, 15 Jan 2022 21:36:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:36:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:36:41: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:36:41: Too few paired peaks (0) 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 21:36:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.20_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/SRX9399045/SRX9399045.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399045/SRX9399045.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling