Job ID = 7113613 SRX = SRX8462177 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:43:37 prefetch.2.10.7: 1) Downloading 'SRR11915636'... 2020-07-22T05:43:37 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:44:48 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:44:49 prefetch.2.10.7: 'SRR11915636' is valid 2020-07-22T05:44:49 prefetch.2.10.7: 1) 'SRR11915636' was downloaded successfully 2020-07-22T05:44:49 prefetch.2.10.7: 'SRR11915636' has 0 unresolved dependencies Read 6853446 spots for SRR11915636/SRR11915636.sra Written 6853446 spots for SRR11915636/SRR11915636.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: 00:06:56 6853446 reads; of these: 6853446 (100.00%) were paired; of these: 966539 (14.10%) aligned concordantly 0 times 4823735 (70.38%) aligned concordantly exactly 1 time 1063172 (15.51%) aligned concordantly >1 times ---- 966539 pairs aligned concordantly 0 times; of these: 35247 (3.65%) aligned discordantly 1 time ---- 931292 pairs aligned 0 times concordantly or discordantly; of these: 1862584 mates make up the pairs; of these: 1718987 (92.29%) aligned 0 times 101583 (5.45%) aligned exactly 1 time 42014 (2.26%) aligned >1 times 87.46% overall alignment rate Time searching: 00:06:56 Overall time: 00:06:56 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] 2117411 / 5917106 = 0.3578 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 14:56:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.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 14:56:46: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:56:46: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:56:52: 1000000 INFO @ Wed, 22 Jul 2020 14:56:59: 2000000 INFO @ Wed, 22 Jul 2020 14:57:06: 3000000 INFO @ Wed, 22 Jul 2020 14:57:12: 4000000 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 14:57:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.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 14:57:16: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:57:16: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:57:19: 5000000 INFO @ Wed, 22 Jul 2020 14:57:23: 1000000 INFO @ Wed, 22 Jul 2020 14:57:26: 6000000 INFO @ Wed, 22 Jul 2020 14:57:30: 2000000 INFO @ Wed, 22 Jul 2020 14:57:32: 7000000 INFO @ Wed, 22 Jul 2020 14:57:36: 3000000 INFO @ Wed, 22 Jul 2020 14:57:38: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:57:38: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:57:38: #1 total tags in treatment: 3773361 INFO @ Wed, 22 Jul 2020 14:57:38: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:57:38: #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 14:57:38: #1 tags after filtering in treatment: 2838029 INFO @ Wed, 22 Jul 2020 14:57:38: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 22 Jul 2020 14:57:38: #1 finished! INFO @ Wed, 22 Jul 2020 14:57:38: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:57:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:57:38: #2 number of paired peaks: 35 WARNING @ Wed, 22 Jul 2020 14:57:38: Too few paired peaks (35) 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 14:57:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.05_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/SRX8462177/SRX8462177.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:57:43: 4000000 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 14:57:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.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 14:57:46: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:57:46: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:57:50: 5000000 INFO @ Wed, 22 Jul 2020 14:57:52: 1000000 INFO @ Wed, 22 Jul 2020 14:57:57: 6000000 INFO @ Wed, 22 Jul 2020 14:57:59: 2000000 INFO @ Wed, 22 Jul 2020 14:58:03: 7000000 INFO @ Wed, 22 Jul 2020 14:58:06: 3000000 INFO @ Wed, 22 Jul 2020 14:58:08: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:58:08: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:58:08: #1 total tags in treatment: 3773361 INFO @ Wed, 22 Jul 2020 14:58:08: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:58:08: #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 14:58:09: #1 tags after filtering in treatment: 2838029 INFO @ Wed, 22 Jul 2020 14:58:09: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 22 Jul 2020 14:58:09: #1 finished! INFO @ Wed, 22 Jul 2020 14:58:09: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:58:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:58:09: #2 number of paired peaks: 35 WARNING @ Wed, 22 Jul 2020 14:58:09: Too few paired peaks (35) 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 14:58:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:58:12: 4000000 INFO @ Wed, 22 Jul 2020 14:58:19: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:58:25: 6000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:58:32: 7000000 INFO @ Wed, 22 Jul 2020 14:58:36: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:58:36: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:58:36: #1 total tags in treatment: 3773361 INFO @ Wed, 22 Jul 2020 14:58:36: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:58:36: #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 14:58:36: #1 tags after filtering in treatment: 2838029 INFO @ Wed, 22 Jul 2020 14:58:36: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 22 Jul 2020 14:58:36: #1 finished! INFO @ Wed, 22 Jul 2020 14:58:36: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:58:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:58:37: #2 number of paired peaks: 35 WARNING @ Wed, 22 Jul 2020 14:58:37: Too few paired peaks (35) 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 14:58:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.20_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/SRX8462177/SRX8462177.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462177/SRX8462177.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling