Job ID = 14521319 SRX = SRX10468548 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4488138 spots for SRR14094859/SRR14094859.sra Written 4488138 spots for SRR14094859/SRR14094859.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: 00:03:07 4488138 reads; of these: 4488138 (100.00%) were paired; of these: 525661 (11.71%) aligned concordantly 0 times 3322506 (74.03%) aligned concordantly exactly 1 time 639971 (14.26%) aligned concordantly >1 times ---- 525661 pairs aligned concordantly 0 times; of these: 30439 (5.79%) aligned discordantly 1 time ---- 495222 pairs aligned 0 times concordantly or discordantly; of these: 990444 mates make up the pairs; of these: 906518 (91.53%) aligned 0 times 56759 (5.73%) aligned exactly 1 time 27167 (2.74%) aligned >1 times 89.90% overall alignment rate Time searching: 00:03:07 Overall time: 00:03:07 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] 107682 / 3964904 = 0.0272 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 20:55:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.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 20:55:47: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:55:47: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:55:55: 1000000 INFO @ Sat, 15 Jan 2022 20:56:02: 2000000 INFO @ Sat, 15 Jan 2022 20:56:08: 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 20:56:16: 4000000 INFO @ Sat, 15 Jan 2022 20:56:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.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 20:56:17: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:56:17: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:56:23: 5000000 INFO @ Sat, 15 Jan 2022 20:56:25: 1000000 INFO @ Sat, 15 Jan 2022 20:56:31: 6000000 INFO @ Sat, 15 Jan 2022 20:56:33: 2000000 INFO @ Sat, 15 Jan 2022 20:56:39: 7000000 INFO @ Sat, 15 Jan 2022 20:56:41: 3000000 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 20:56:46: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:56:46: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:56:46: #1 total tags in treatment: 3854855 INFO @ Sat, 15 Jan 2022 20:56:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:56:46: #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 20:56:46: #1 tags after filtering in treatment: 3246065 INFO @ Sat, 15 Jan 2022 20:56:46: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:56:46: #1 finished! INFO @ Sat, 15 Jan 2022 20:56:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:56:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:56:47: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 20:56:47: Too few paired peaks (29) 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 20:56:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.05_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/SRX10468548/SRX10468548.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:56:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.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 20:56:47: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:56:47: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:56:49: 4000000 INFO @ Sat, 15 Jan 2022 20:56:57: 1000000 INFO @ Sat, 15 Jan 2022 20:56:57: 5000000 INFO @ Sat, 15 Jan 2022 20:57:05: 6000000 INFO @ Sat, 15 Jan 2022 20:57:07: 2000000 INFO @ Sat, 15 Jan 2022 20:57:13: 7000000 INFO @ Sat, 15 Jan 2022 20:57:17: 3000000 INFO @ Sat, 15 Jan 2022 20:57:20: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:57:20: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:57:20: #1 total tags in treatment: 3854855 INFO @ Sat, 15 Jan 2022 20:57:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:57:20: #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 20:57:20: #1 tags after filtering in treatment: 3246065 INFO @ Sat, 15 Jan 2022 20:57:20: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:57:20: #1 finished! INFO @ Sat, 15 Jan 2022 20:57:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:57:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:57:20: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 20:57:20: Too few paired peaks (29) 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 20:57:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.10_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/SRX10468548/SRX10468548.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:57:27: 4000000 INFO @ Sat, 15 Jan 2022 20:57:36: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:57:46: 6000000 INFO @ Sat, 15 Jan 2022 20:57:56: 7000000 INFO @ Sat, 15 Jan 2022 20:58:04: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:58:04: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:58:04: #1 total tags in treatment: 3854855 INFO @ Sat, 15 Jan 2022 20:58:04: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:58:04: #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 20:58:04: #1 tags after filtering in treatment: 3246065 INFO @ Sat, 15 Jan 2022 20:58:04: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:58:04: #1 finished! INFO @ Sat, 15 Jan 2022 20:58:04: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:58:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:58:04: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 20:58:04: Too few paired peaks (29) 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 20:58:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.20_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/SRX10468548/SRX10468548.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468548/SRX10468548.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling