Job ID = 7112854 SRX = SRX8357695 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:24:44 prefetch.2.10.7: 1) Downloading 'SRR11806283'... 2020-07-22T05:24:44 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:35:44 prefetch.2.10.7: HTTPS download failed 2020-07-22T05:35:44 prefetch.2.10.7: 1) failed to download SRR11806283 2020-07-22T05:35:58 prefetch.2.10.7: 1) Downloading 'SRR11806283'... 2020-07-22T05:35:58 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:35:58 prefetch.2.10.7: Continue download of 'SRR11806283' from 696278180 2020-07-22T05:36:06 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:36:06 prefetch.2.10.7: 1) 'SRR11806283' was downloaded successfully 2020-07-22T05:36:06 prefetch.2.10.7: 'SRR11806283' has 0 unresolved dependencies Read 22248727 spots for SRR11806283/SRR11806283.sra Written 22248727 spots for SRR11806283/SRR11806283.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: 00:12:00 22248727 reads; of these: 22248727 (100.00%) were paired; of these: 998581 (4.49%) aligned concordantly 0 times 18936346 (85.11%) aligned concordantly exactly 1 time 2313800 (10.40%) aligned concordantly >1 times ---- 998581 pairs aligned concordantly 0 times; of these: 104048 (10.42%) aligned discordantly 1 time ---- 894533 pairs aligned 0 times concordantly or discordantly; of these: 1789066 mates make up the pairs; of these: 1546898 (86.46%) aligned 0 times 121478 (6.79%) aligned exactly 1 time 120690 (6.75%) aligned >1 times 96.52% overall alignment rate Time searching: 00:12:00 Overall time: 00:12:00 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 20 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] 7150507 / 21305967 = 0.3356 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 14:56:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.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 14:56:41: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:56:41: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:56:46: 1000000 INFO @ Wed, 22 Jul 2020 14:56:52: 2000000 INFO @ Wed, 22 Jul 2020 14:56:57: 3000000 INFO @ Wed, 22 Jul 2020 14:57:02: 4000000 INFO @ Wed, 22 Jul 2020 14:57:07: 5000000 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 14:57:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.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 14:57:11: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:57:11: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:57:12: 6000000 INFO @ Wed, 22 Jul 2020 14:57:17: 1000000 INFO @ Wed, 22 Jul 2020 14:57:18: 7000000 INFO @ Wed, 22 Jul 2020 14:57:23: 2000000 INFO @ Wed, 22 Jul 2020 14:57:24: 8000000 INFO @ Wed, 22 Jul 2020 14:57:29: 3000000 INFO @ Wed, 22 Jul 2020 14:57:30: 9000000 INFO @ Wed, 22 Jul 2020 14:57:34: 4000000 INFO @ Wed, 22 Jul 2020 14:57:35: 10000000 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 14:57:40: 5000000 INFO @ Wed, 22 Jul 2020 14:57:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.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 14:57:41: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:57:41: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:57:41: 11000000 INFO @ Wed, 22 Jul 2020 14:57:47: 6000000 INFO @ Wed, 22 Jul 2020 14:57:48: 12000000 INFO @ Wed, 22 Jul 2020 14:57:49: 1000000 INFO @ Wed, 22 Jul 2020 14:57:54: 7000000 INFO @ Wed, 22 Jul 2020 14:57:55: 13000000 INFO @ Wed, 22 Jul 2020 14:57:56: 2000000 INFO @ Wed, 22 Jul 2020 14:58:01: 8000000 INFO @ Wed, 22 Jul 2020 14:58:02: 14000000 INFO @ Wed, 22 Jul 2020 14:58:03: 3000000 INFO @ Wed, 22 Jul 2020 14:58:08: 9000000 INFO @ Wed, 22 Jul 2020 14:58:09: 15000000 INFO @ Wed, 22 Jul 2020 14:58:11: 4000000 INFO @ Wed, 22 Jul 2020 14:58:15: 10000000 INFO @ Wed, 22 Jul 2020 14:58:16: 16000000 INFO @ Wed, 22 Jul 2020 14:58:18: 5000000 INFO @ Wed, 22 Jul 2020 14:58:21: 11000000 INFO @ Wed, 22 Jul 2020 14:58:22: 17000000 INFO @ Wed, 22 Jul 2020 14:58:25: 6000000 INFO @ Wed, 22 Jul 2020 14:58:28: 12000000 INFO @ Wed, 22 Jul 2020 14:58:29: 18000000 INFO @ Wed, 22 Jul 2020 14:58:32: 7000000 INFO @ Wed, 22 Jul 2020 14:58:35: 13000000 INFO @ Wed, 22 Jul 2020 14:58:36: 19000000 INFO @ Wed, 22 Jul 2020 14:58:39: 8000000 INFO @ Wed, 22 Jul 2020 14:58:42: 14000000 INFO @ Wed, 22 Jul 2020 14:58:42: 20000000 INFO @ Wed, 22 Jul 2020 14:58:46: 9000000 INFO @ Wed, 22 Jul 2020 14:58:48: 15000000 INFO @ Wed, 22 Jul 2020 14:58:49: 21000000 INFO @ Wed, 22 Jul 2020 14:58:54: 10000000 INFO @ Wed, 22 Jul 2020 14:58:55: 16000000 INFO @ Wed, 22 Jul 2020 14:58:56: 22000000 INFO @ Wed, 22 Jul 2020 14:59:01: 11000000 INFO @ Wed, 22 Jul 2020 14:59:02: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:59:03: 23000000 INFO @ Wed, 22 Jul 2020 14:59:08: 12000000 INFO @ Wed, 22 Jul 2020 14:59:09: 18000000 INFO @ Wed, 22 Jul 2020 14:59:10: 24000000 INFO @ Wed, 22 Jul 2020 14:59:15: 13000000 INFO @ Wed, 22 Jul 2020 14:59:15: 19000000 INFO @ Wed, 22 Jul 2020 14:59:16: 25000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:59:22: 14000000 INFO @ Wed, 22 Jul 2020 14:59:22: 20000000 INFO @ Wed, 22 Jul 2020 14:59:23: 26000000 INFO @ Wed, 22 Jul 2020 14:59:29: 21000000 INFO @ Wed, 22 Jul 2020 14:59:29: 15000000 INFO @ Wed, 22 Jul 2020 14:59:30: 27000000 INFO @ Wed, 22 Jul 2020 14:59:36: 22000000 INFO @ Wed, 22 Jul 2020 14:59:36: 16000000 INFO @ Wed, 22 Jul 2020 14:59:37: 28000000 INFO @ Wed, 22 Jul 2020 14:59:41: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:59:41: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:59:41: #1 total tags in treatment: 14118058 INFO @ Wed, 22 Jul 2020 14:59:41: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:59:41: #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 14:59:41: #1 tags after filtering in treatment: 6154102 INFO @ Wed, 22 Jul 2020 14:59:41: #1 Redundant rate of treatment: 0.56 INFO @ Wed, 22 Jul 2020 14:59:41: #1 finished! INFO @ Wed, 22 Jul 2020 14:59:41: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:59:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:59:42: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:59:42: 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 14:59:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.05_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/SRX8357695/SRX8357695.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:59:42: 23000000 INFO @ Wed, 22 Jul 2020 14:59:43: 17000000 INFO @ Wed, 22 Jul 2020 14:59:49: 24000000 INFO @ Wed, 22 Jul 2020 14:59:50: 18000000 INFO @ Wed, 22 Jul 2020 14:59:55: 25000000 INFO @ Wed, 22 Jul 2020 14:59:57: 19000000 INFO @ Wed, 22 Jul 2020 15:00:01: 26000000 INFO @ Wed, 22 Jul 2020 15:00:03: 20000000 INFO @ Wed, 22 Jul 2020 15:00:07: 27000000 INFO @ Wed, 22 Jul 2020 15:00:10: 21000000 INFO @ Wed, 22 Jul 2020 15:00:14: 28000000 INFO @ Wed, 22 Jul 2020 15:00:17: 22000000 INFO @ Wed, 22 Jul 2020 15:00:18: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 15:00:18: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 15:00:18: #1 total tags in treatment: 14118058 INFO @ Wed, 22 Jul 2020 15:00:18: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:00:18: #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 15:00:18: #1 tags after filtering in treatment: 6154102 INFO @ Wed, 22 Jul 2020 15:00:18: #1 Redundant rate of treatment: 0.56 INFO @ Wed, 22 Jul 2020 15:00:18: #1 finished! INFO @ Wed, 22 Jul 2020 15:00:18: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:00:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:00:18: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:00:18: 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 15:00:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.10_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/SRX8357695/SRX8357695.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:00:24: 23000000 INFO @ Wed, 22 Jul 2020 15:00:30: 24000000 INFO @ Wed, 22 Jul 2020 15:00:36: 25000000 INFO @ Wed, 22 Jul 2020 15:00:43: 26000000 INFO @ Wed, 22 Jul 2020 15:00:49: 27000000 INFO @ Wed, 22 Jul 2020 15:00:55: 28000000 INFO @ Wed, 22 Jul 2020 15:00:59: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 15:00:59: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 15:00:59: #1 total tags in treatment: 14118058 INFO @ Wed, 22 Jul 2020 15:00:59: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:00:59: #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 15:01:00: #1 tags after filtering in treatment: 6154102 INFO @ Wed, 22 Jul 2020 15:01:00: #1 Redundant rate of treatment: 0.56 INFO @ Wed, 22 Jul 2020 15:01:00: #1 finished! INFO @ Wed, 22 Jul 2020 15:01:00: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:01:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:01:00: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:01:00: 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 15:01:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.20_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/SRX8357695/SRX8357695.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357695/SRX8357695.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling