Job ID = 14521808 SRX = SRX9399070 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4683036 spots for SRR12935351/SRR12935351.sra Written 4683036 spots for SRR12935351/SRR12935351.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: 00:03:03 4683036 reads; of these: 4683036 (100.00%) were paired; of these: 809520 (17.29%) aligned concordantly 0 times 3375759 (72.08%) aligned concordantly exactly 1 time 497757 (10.63%) aligned concordantly >1 times ---- 809520 pairs aligned concordantly 0 times; of these: 138671 (17.13%) aligned discordantly 1 time ---- 670849 pairs aligned 0 times concordantly or discordantly; of these: 1341698 mates make up the pairs; of these: 1118094 (83.33%) aligned 0 times 163825 (12.21%) aligned exactly 1 time 59779 (4.46%) aligned >1 times 88.06% overall alignment rate Time searching: 00:03:03 Overall time: 00:03:03 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] 283965 / 3958338 = 0.0717 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 21:44:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.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 21:44:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:44:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:44:48: 1000000 INFO @ Sat, 15 Jan 2022 21:44:56: 2000000 INFO @ Sat, 15 Jan 2022 21:45:04: 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 21:45:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.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 21:45:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:45:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:45:13: 4000000 INFO @ Sat, 15 Jan 2022 21:45:19: 1000000 INFO @ Sat, 15 Jan 2022 21:45:21: 5000000 INFO @ Sat, 15 Jan 2022 21:45:26: 2000000 INFO @ Sat, 15 Jan 2022 21:45:29: 6000000 INFO @ Sat, 15 Jan 2022 21:45:34: 3000000 INFO @ Sat, 15 Jan 2022 21:45:37: 7000000 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 21:45:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.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 21:45:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:45:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:45:43: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:45:43: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:45:43: #1 total tags in treatment: 3591882 INFO @ Sat, 15 Jan 2022 21:45:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:45:43: #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 21:45:43: #1 tags after filtering in treatment: 2656080 INFO @ Sat, 15 Jan 2022 21:45:43: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 21:45:43: #1 finished! INFO @ Sat, 15 Jan 2022 21:45:43: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:45:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:45:43: 4000000 INFO @ Sat, 15 Jan 2022 21:45:43: #2 number of paired peaks: 9 WARNING @ Sat, 15 Jan 2022 21:45:43: Too few paired peaks (9) 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 21:45:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.05_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/SRX9399070/SRX9399070.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:45:47: 1000000 INFO @ Sat, 15 Jan 2022 21:45:51: 5000000 INFO @ Sat, 15 Jan 2022 21:45:55: 2000000 INFO @ Sat, 15 Jan 2022 21:45:59: 6000000 INFO @ Sat, 15 Jan 2022 21:46:03: 3000000 INFO @ Sat, 15 Jan 2022 21:46:08: 7000000 INFO @ Sat, 15 Jan 2022 21:46:09: 4000000 INFO @ Sat, 15 Jan 2022 21:46:14: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:46:14: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:46:14: #1 total tags in treatment: 3591882 INFO @ Sat, 15 Jan 2022 21:46:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:14: #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 21:46:14: #1 tags after filtering in treatment: 2656080 INFO @ Sat, 15 Jan 2022 21:46:14: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 21:46:14: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:14: #2 number of paired peaks: 9 WARNING @ Sat, 15 Jan 2022 21:46:14: Too few paired peaks (9) 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 21:46:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.10_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/SRX9399070/SRX9399070.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:46:16: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:46:22: 6000000 INFO @ Sat, 15 Jan 2022 21:46:28: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:46:32: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:46:32: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:46:32: #1 total tags in treatment: 3591882 INFO @ Sat, 15 Jan 2022 21:46:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:32: #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 21:46:33: #1 tags after filtering in treatment: 2656080 INFO @ Sat, 15 Jan 2022 21:46:33: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 21:46:33: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:33: #2 number of paired peaks: 9 WARNING @ Sat, 15 Jan 2022 21:46:33: Too few paired peaks (9) 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 21:46:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.20_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/SRX9399070/SRX9399070.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399070/SRX9399070.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling