Job ID = 7111540 SRX = SRX8357661 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:07:59 prefetch.2.10.7: 1) Downloading 'SRR11806249'... 2020-07-22T05:07:59 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:08:45 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:08:45 prefetch.2.10.7: 'SRR11806249' is valid 2020-07-22T05:08:45 prefetch.2.10.7: 1) 'SRR11806249' was downloaded successfully 2020-07-22T05:08:45 prefetch.2.10.7: 'SRR11806249' has 0 unresolved dependencies Read 6561534 spots for SRR11806249/SRR11806249.sra Written 6561534 spots for SRR11806249/SRR11806249.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: 00:01:23 6561534 reads; of these: 6561534 (100.00%) were paired; of these: 5140847 (78.35%) aligned concordantly 0 times 1149914 (17.53%) aligned concordantly exactly 1 time 270773 (4.13%) aligned concordantly >1 times ---- 5140847 pairs aligned concordantly 0 times; of these: 3074 (0.06%) aligned discordantly 1 time ---- 5137773 pairs aligned 0 times concordantly or discordantly; of these: 10275546 mates make up the pairs; of these: 10249519 (99.75%) aligned 0 times 15496 (0.15%) aligned exactly 1 time 10531 (0.10%) aligned >1 times 21.90% overall alignment rate Time searching: 00:01:23 Overall time: 00:01:23 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] 204017 / 1422709 = 0.1434 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:11:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.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 @ Wed, 22 Jul 2020 14:11:57: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:11:57: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:12:03: 1000000 INFO @ Wed, 22 Jul 2020 14:12:09: 2000000 INFO @ Wed, 22 Jul 2020 14:12:12: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:12:12: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:12:12: #1 total tags in treatment: 1216938 INFO @ Wed, 22 Jul 2020 14:12:12: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:12:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:12:12: #1 tags after filtering in treatment: 993791 INFO @ Wed, 22 Jul 2020 14:12:12: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Jul 2020 14:12:12: #1 finished! INFO @ Wed, 22 Jul 2020 14:12:12: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:12:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:12:12: #2 number of paired peaks: 32 WARNING @ Wed, 22 Jul 2020 14:12:12: 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 @ Wed, 22 Jul 2020 14:12:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.05_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/SRX8357661/SRX8357661.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:12:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.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 @ Wed, 22 Jul 2020 14:12:27: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:12:27: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:12:32: 1000000 INFO @ Wed, 22 Jul 2020 14:12:38: 2000000 INFO @ Wed, 22 Jul 2020 14:12:40: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:12:40: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:12:40: #1 total tags in treatment: 1216938 INFO @ Wed, 22 Jul 2020 14:12:40: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:12:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:12:40: #1 tags after filtering in treatment: 993791 INFO @ Wed, 22 Jul 2020 14:12:40: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Jul 2020 14:12:40: #1 finished! INFO @ Wed, 22 Jul 2020 14:12:40: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:12:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:12:40: #2 number of paired peaks: 32 WARNING @ Wed, 22 Jul 2020 14:12:40: 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 @ Wed, 22 Jul 2020 14:12:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.10_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/SRX8357661/SRX8357661.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:12:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.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 @ Wed, 22 Jul 2020 14:12:57: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:12:57: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:13:02: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:13:08: 2000000 INFO @ Wed, 22 Jul 2020 14:13:10: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:13:10: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:13:10: #1 total tags in treatment: 1216938 INFO @ Wed, 22 Jul 2020 14:13:10: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:13:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:13:10: #1 tags after filtering in treatment: 993791 INFO @ Wed, 22 Jul 2020 14:13:10: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Jul 2020 14:13:10: #1 finished! INFO @ Wed, 22 Jul 2020 14:13:10: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:13:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:13:10: #2 number of paired peaks: 32 WARNING @ Wed, 22 Jul 2020 14:13:10: 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 @ Wed, 22 Jul 2020 14:13:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.20_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/SRX8357661/SRX8357661.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357661/SRX8357661.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。