Job ID = 6527464 SRX = SRX016166 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:38:42 prefetch.2.10.7: 1) Downloading 'SRR034732'... 2020-06-29T12:38:42 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:40:17 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:40:18 prefetch.2.10.7: 'SRR034732' is valid 2020-06-29T12:40:18 prefetch.2.10.7: 1) 'SRR034732' was downloaded successfully Read 12817444 spots for SRR034732/SRR034732.sra Written 12817444 spots for SRR034732/SRR034732.sra 2020-06-29T12:40:59 prefetch.2.10.7: 1) Downloading 'SRR034733'... 2020-06-29T12:40:59 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:42:18 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:42:18 prefetch.2.10.7: 'SRR034733' is valid 2020-06-29T12:42:18 prefetch.2.10.7: 1) 'SRR034733' was downloaded successfully Read 13154015 spots for SRR034733/SRR034733.sra Written 13154015 spots for SRR034733/SRR034733.sra 2020-06-29T12:43:01 prefetch.2.10.7: 1) Downloading 'SRR034734'... 2020-06-29T12:43:01 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:43:46 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:43:46 prefetch.2.10.7: 'SRR034734' is valid 2020-06-29T12:43:46 prefetch.2.10.7: 1) 'SRR034734' was downloaded successfully Read 11014563 spots for SRR034734/SRR034734.sra Written 11014563 spots for SRR034734/SRR034734.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: 00:07:30 36986022 reads; of these: 36986022 (100.00%) were unpaired; of these: 2944678 (7.96%) aligned 0 times 28464549 (76.96%) aligned exactly 1 time 5576795 (15.08%) aligned >1 times 92.04% overall alignment rate Time searching: 00:07:30 Overall time: 00:07:30 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 13128305 / 34041344 = 0.3857 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 @ Mon, 29 Jun 2020 22:06:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 22:06:13: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:06:13: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:06:18: 1000000 INFO @ Mon, 29 Jun 2020 22:06:22: 2000000 INFO @ Mon, 29 Jun 2020 22:06:27: 3000000 INFO @ Mon, 29 Jun 2020 22:06:32: 4000000 INFO @ Mon, 29 Jun 2020 22:06:37: 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 @ Mon, 29 Jun 2020 22:06:41: 6000000 INFO @ Mon, 29 Jun 2020 22:06:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 22:06:43: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:06:43: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:06:46: 7000000 INFO @ Mon, 29 Jun 2020 22:06:48: 1000000 INFO @ Mon, 29 Jun 2020 22:06:51: 8000000 INFO @ Mon, 29 Jun 2020 22:06:53: 2000000 INFO @ Mon, 29 Jun 2020 22:06:56: 9000000 INFO @ Mon, 29 Jun 2020 22:06:58: 3000000 INFO @ Mon, 29 Jun 2020 22:07:01: 10000000 INFO @ Mon, 29 Jun 2020 22:07:03: 4000000 INFO @ Mon, 29 Jun 2020 22:07:06: 11000000 INFO @ Mon, 29 Jun 2020 22:07:08: 5000000 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 @ Mon, 29 Jun 2020 22:07:11: 12000000 INFO @ Mon, 29 Jun 2020 22:07:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 22:07:13: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:07:13: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:07:13: 6000000 INFO @ Mon, 29 Jun 2020 22:07:16: 13000000 INFO @ Mon, 29 Jun 2020 22:07:18: 7000000 INFO @ Mon, 29 Jun 2020 22:07:18: 1000000 INFO @ Mon, 29 Jun 2020 22:07:22: 14000000 INFO @ Mon, 29 Jun 2020 22:07:23: 8000000 INFO @ Mon, 29 Jun 2020 22:07:23: 2000000 INFO @ Mon, 29 Jun 2020 22:07:27: 15000000 INFO @ Mon, 29 Jun 2020 22:07:28: 9000000 INFO @ Mon, 29 Jun 2020 22:07:29: 3000000 INFO @ Mon, 29 Jun 2020 22:07:32: 16000000 INFO @ Mon, 29 Jun 2020 22:07:33: 10000000 INFO @ Mon, 29 Jun 2020 22:07:34: 4000000 INFO @ Mon, 29 Jun 2020 22:07:37: 17000000 INFO @ Mon, 29 Jun 2020 22:07:38: 11000000 INFO @ Mon, 29 Jun 2020 22:07:39: 5000000 INFO @ Mon, 29 Jun 2020 22:07:42: 18000000 INFO @ Mon, 29 Jun 2020 22:07:43: 12000000 INFO @ Mon, 29 Jun 2020 22:07:44: 6000000 INFO @ Mon, 29 Jun 2020 22:07:48: 19000000 INFO @ Mon, 29 Jun 2020 22:07:48: 13000000 INFO @ Mon, 29 Jun 2020 22:07:49: 7000000 INFO @ Mon, 29 Jun 2020 22:07:53: 20000000 INFO @ Mon, 29 Jun 2020 22:07:53: 14000000 INFO @ Mon, 29 Jun 2020 22:07:54: 8000000 INFO @ Mon, 29 Jun 2020 22:07:58: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:07:58: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:07:58: #1 total tags in treatment: 20913039 INFO @ Mon, 29 Jun 2020 22:07:58: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:07:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:07:58: #1 tags after filtering in treatment: 20913039 INFO @ Mon, 29 Jun 2020 22:07:58: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:07:58: #1 finished! INFO @ Mon, 29 Jun 2020 22:07:58: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:07:58: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:07:58: 15000000 INFO @ Mon, 29 Jun 2020 22:07:59: 9000000 INFO @ Mon, 29 Jun 2020 22:07:59: #2 number of paired peaks: 90 WARNING @ Mon, 29 Jun 2020 22:07:59: Too few paired peaks (90) 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 @ Mon, 29 Jun 2020 22:07:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.05_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/dm3/SRX016166/SRX016166.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:08:04: 16000000 INFO @ Mon, 29 Jun 2020 22:08:04: 10000000 INFO @ Mon, 29 Jun 2020 22:08:09: 17000000 INFO @ Mon, 29 Jun 2020 22:08:09: 11000000 INFO @ Mon, 29 Jun 2020 22:08:14: 18000000 INFO @ Mon, 29 Jun 2020 22:08:14: 12000000 INFO @ Mon, 29 Jun 2020 22:08:19: 19000000 INFO @ Mon, 29 Jun 2020 22:08:20: 13000000 INFO @ Mon, 29 Jun 2020 22:08:24: 20000000 INFO @ Mon, 29 Jun 2020 22:08:25: 14000000 INFO @ Mon, 29 Jun 2020 22:08:29: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:08:29: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:08:29: #1 total tags in treatment: 20913039 INFO @ Mon, 29 Jun 2020 22:08:29: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:08:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:08:30: #1 tags after filtering in treatment: 20913039 INFO @ Mon, 29 Jun 2020 22:08:30: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:08:30: #1 finished! INFO @ Mon, 29 Jun 2020 22:08:30: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:08:30: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:08:30: 15000000 INFO @ Mon, 29 Jun 2020 22:08:31: #2 number of paired peaks: 90 WARNING @ Mon, 29 Jun 2020 22:08:31: Too few paired peaks (90) 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 @ Mon, 29 Jun 2020 22:08:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.10_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/dm3/SRX016166/SRX016166.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:08:36: 16000000 INFO @ Mon, 29 Jun 2020 22:08:41: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:08:46: 18000000 INFO @ Mon, 29 Jun 2020 22:08:51: 19000000 INFO @ Mon, 29 Jun 2020 22:08:56: 20000000 INFO @ Mon, 29 Jun 2020 22:09:01: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:09:01: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:09:01: #1 total tags in treatment: 20913039 INFO @ Mon, 29 Jun 2020 22:09:01: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:09:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:09:01: #1 tags after filtering in treatment: 20913039 INFO @ Mon, 29 Jun 2020 22:09:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:09:01: #1 finished! INFO @ Mon, 29 Jun 2020 22:09:01: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:09:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:09:03: #2 number of paired peaks: 90 WARNING @ Mon, 29 Jun 2020 22:09:03: Too few paired peaks (90) 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 @ Mon, 29 Jun 2020 22:09:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.20_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/dm3/SRX016166/SRX016166.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX016166/SRX016166.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。