Job ID = 7115235 SRX = SRX8462226 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:06:32 prefetch.2.10.7: 1) Downloading 'SRR11915685'... 2020-07-22T06:06:32 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:07:17 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:07:17 prefetch.2.10.7: 'SRR11915685' is valid 2020-07-22T06:07:17 prefetch.2.10.7: 1) 'SRR11915685' was downloaded successfully 2020-07-22T06:07:17 prefetch.2.10.7: 'SRR11915685' has 0 unresolved dependencies Read 2200039 spots for SRR11915685/SRR11915685.sra Written 2200039 spots for SRR11915685/SRR11915685.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: 00:01:50 2200039 reads; of these: 2200039 (100.00%) were paired; of these: 111203 (5.05%) aligned concordantly 0 times 1808961 (82.22%) aligned concordantly exactly 1 time 279875 (12.72%) aligned concordantly >1 times ---- 111203 pairs aligned concordantly 0 times; of these: 8553 (7.69%) aligned discordantly 1 time ---- 102650 pairs aligned 0 times concordantly or discordantly; of these: 205300 mates make up the pairs; of these: 157681 (76.81%) aligned 0 times 37846 (18.43%) aligned exactly 1 time 9773 (4.76%) aligned >1 times 96.42% overall alignment rate Time searching: 00:01:50 Overall time: 00:01:50 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] 277662 / 2091280 = 0.1328 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 15:11:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.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 15:11:11: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:11:11: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:11:18: 1000000 INFO @ Wed, 22 Jul 2020 15:11:24: 2000000 INFO @ Wed, 22 Jul 2020 15:11:30: 3000000 INFO @ Wed, 22 Jul 2020 15:11:34: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:11:34: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:11:34: #1 total tags in treatment: 1811340 INFO @ Wed, 22 Jul 2020 15:11:34: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:11:34: #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 15:11:34: #1 tags after filtering in treatment: 1609871 INFO @ Wed, 22 Jul 2020 15:11:34: #1 Redundant rate of treatment: 0.11 INFO @ Wed, 22 Jul 2020 15:11:34: #1 finished! INFO @ Wed, 22 Jul 2020 15:11:34: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:11:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:11:34: #2 number of paired peaks: 82 WARNING @ Wed, 22 Jul 2020 15:11:34: Too few paired peaks (82) 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 15:11:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.05_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/SRX8462226/SRX8462226.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.05_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 15:11:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.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 15:11:41: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:11:41: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:11:47: 1000000 INFO @ Wed, 22 Jul 2020 15:11:53: 2000000 INFO @ Wed, 22 Jul 2020 15:11:59: 3000000 INFO @ Wed, 22 Jul 2020 15:12:03: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:12:03: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:12:03: #1 total tags in treatment: 1811340 INFO @ Wed, 22 Jul 2020 15:12:03: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:12:03: #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 15:12:03: #1 tags after filtering in treatment: 1609871 INFO @ Wed, 22 Jul 2020 15:12:03: #1 Redundant rate of treatment: 0.11 INFO @ Wed, 22 Jul 2020 15:12:03: #1 finished! INFO @ Wed, 22 Jul 2020 15:12:03: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:12:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:12:03: #2 number of paired peaks: 82 WARNING @ Wed, 22 Jul 2020 15:12:03: Too few paired peaks (82) 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 15:12:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.10_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/SRX8462226/SRX8462226.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.10_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 15:12:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.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 15:12:11: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:12:11: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:12:17: 1000000 INFO @ Wed, 22 Jul 2020 15:12:23: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:12:29: 3000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:12:34: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:12:34: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:12:34: #1 total tags in treatment: 1811340 INFO @ Wed, 22 Jul 2020 15:12:34: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:12:34: #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 15:12:34: #1 tags after filtering in treatment: 1609871 INFO @ Wed, 22 Jul 2020 15:12:34: #1 Redundant rate of treatment: 0.11 INFO @ Wed, 22 Jul 2020 15:12:34: #1 finished! INFO @ Wed, 22 Jul 2020 15:12:34: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:12:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:12:34: #2 number of paired peaks: 82 WARNING @ Wed, 22 Jul 2020 15:12:34: Too few paired peaks (82) 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 15:12:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.20_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/SRX8462226/SRX8462226.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462226/SRX8462226.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling