Job ID = 7108994 SRX = SRX8036501 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15723959 spots for SRR11458948/SRR11458948.sra Written 15723959 spots for SRR11458948/SRR11458948.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: 00:12:11 15723959 reads; of these: 15723959 (100.00%) were paired; of these: 8525248 (54.22%) aligned concordantly 0 times 6352835 (40.40%) aligned concordantly exactly 1 time 845876 (5.38%) aligned concordantly >1 times ---- 8525248 pairs aligned concordantly 0 times; of these: 195131 (2.29%) aligned discordantly 1 time ---- 8330117 pairs aligned 0 times concordantly or discordantly; of these: 16660234 mates make up the pairs; of these: 16538052 (99.27%) aligned 0 times 57803 (0.35%) aligned exactly 1 time 64379 (0.39%) aligned >1 times 47.41% overall alignment rate Time searching: 00:12:11 Overall time: 00:12:11 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 12 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] 931571 / 7384194 = 0.1262 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 14:02:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.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 14:02:08: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:02:08: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:02:14: 1000000 INFO @ Wed, 22 Jul 2020 14:02:20: 2000000 INFO @ Wed, 22 Jul 2020 14:02:26: 3000000 INFO @ Wed, 22 Jul 2020 14:02:31: 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 14:02:37: 5000000 INFO @ Wed, 22 Jul 2020 14:02:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.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 14:02:37: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:02:37: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:02:43: 6000000 INFO @ Wed, 22 Jul 2020 14:02:44: 1000000 INFO @ Wed, 22 Jul 2020 14:02:49: 7000000 INFO @ Wed, 22 Jul 2020 14:02:50: 2000000 INFO @ Wed, 22 Jul 2020 14:02:55: 8000000 INFO @ Wed, 22 Jul 2020 14:02:56: 3000000 INFO @ Wed, 22 Jul 2020 14:03:01: 9000000 INFO @ Wed, 22 Jul 2020 14:03:02: 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 14:03:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.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 14:03:07: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:03:07: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:03:07: 10000000 INFO @ Wed, 22 Jul 2020 14:03:08: 5000000 INFO @ Wed, 22 Jul 2020 14:03:13: 11000000 INFO @ Wed, 22 Jul 2020 14:03:14: 6000000 INFO @ Wed, 22 Jul 2020 14:03:15: 1000000 INFO @ Wed, 22 Jul 2020 14:03:20: 12000000 INFO @ Wed, 22 Jul 2020 14:03:21: 7000000 INFO @ Wed, 22 Jul 2020 14:03:22: 2000000 INFO @ Wed, 22 Jul 2020 14:03:26: 13000000 INFO @ Wed, 22 Jul 2020 14:03:26: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:03:26: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:03:26: #1 total tags in treatment: 6284367 INFO @ Wed, 22 Jul 2020 14:03:26: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:03:26: #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 14:03:26: #1 tags after filtering in treatment: 4976449 INFO @ Wed, 22 Jul 2020 14:03:26: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 22 Jul 2020 14:03:26: #1 finished! INFO @ Wed, 22 Jul 2020 14:03:26: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:03:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:03:27: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:03:27: 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 @ Wed, 22 Jul 2020 14:03:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.05_peaks.narrowPeak: No such file or directory INFO @ Wed, 22 Jul 2020 14:03:27: 8000000 pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:03:29: 3000000 INFO @ Wed, 22 Jul 2020 14:03:33: 9000000 INFO @ Wed, 22 Jul 2020 14:03:37: 4000000 INFO @ Wed, 22 Jul 2020 14:03:39: 10000000 INFO @ Wed, 22 Jul 2020 14:03:44: 5000000 INFO @ Wed, 22 Jul 2020 14:03:45: 11000000 INFO @ Wed, 22 Jul 2020 14:03:51: 6000000 INFO @ Wed, 22 Jul 2020 14:03:51: 12000000 INFO @ Wed, 22 Jul 2020 14:03:57: 13000000 INFO @ Wed, 22 Jul 2020 14:03:58: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:03:58: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:03:58: #1 total tags in treatment: 6284367 INFO @ Wed, 22 Jul 2020 14:03:58: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:03:58: #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 14:03:58: #1 tags after filtering in treatment: 4976449 INFO @ Wed, 22 Jul 2020 14:03:58: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 22 Jul 2020 14:03:58: #1 finished! INFO @ Wed, 22 Jul 2020 14:03:58: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:03:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:03:58: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:03:58: 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 @ Wed, 22 Jul 2020 14:03:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.10_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/SRX8036501/SRX8036501.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:03:58: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:04:05: 8000000 INFO @ Wed, 22 Jul 2020 14:04:13: 9000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:04:20: 10000000 INFO @ Wed, 22 Jul 2020 14:04:27: 11000000 INFO @ Wed, 22 Jul 2020 14:04:34: 12000000 INFO @ Wed, 22 Jul 2020 14:04:41: 13000000 INFO @ Wed, 22 Jul 2020 14:04:42: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:04:42: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:04:42: #1 total tags in treatment: 6284367 INFO @ Wed, 22 Jul 2020 14:04:42: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:04:42: #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 14:04:42: #1 tags after filtering in treatment: 4976449 INFO @ Wed, 22 Jul 2020 14:04:42: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 22 Jul 2020 14:04:42: #1 finished! INFO @ Wed, 22 Jul 2020 14:04:42: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:04:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:04:42: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:04:42: 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 @ Wed, 22 Jul 2020 14:04:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.20_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/SRX8036501/SRX8036501.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036501/SRX8036501.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling