Job ID = 6528126 SRX = SRX474526 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:19:20 prefetch.2.10.7: 1) Downloading 'SRR1174373'... 2020-06-29T14:19:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:20:17 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:20:17 prefetch.2.10.7: 'SRR1174373' is valid 2020-06-29T14:20:17 prefetch.2.10.7: 1) 'SRR1174373' was downloaded successfully 2020-06-29T14:21:09 prefetch.2.10.7: 'SRR1174373' has 10 unresolved dependencies 2020-06-29T14:21:09 prefetch.2.10.7: 2) Downloading 'ncbi-acc:AE013599.4?vdb-ctx=refseq'... 2020-06-29T14:21:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:21:27 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:21:27 prefetch.2.10.7: 2) 'ncbi-acc:AE013599.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:21:27 prefetch.2.10.7: 3) Downloading 'ncbi-acc:AE014134.5?vdb-ctx=refseq'... 2020-06-29T14:21:27 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:21:39 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:21:39 prefetch.2.10.7: 3) 'ncbi-acc:AE014134.5?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:21:39 prefetch.2.10.7: 4) Downloading 'ncbi-acc:AE014135.3?vdb-ctx=refseq'... 2020-06-29T14:21:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:21:48 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:21:48 prefetch.2.10.7: 4) 'ncbi-acc:AE014135.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:21:48 prefetch.2.10.7: 5) Downloading 'ncbi-acc:AE014296.4?vdb-ctx=refseq'... 2020-06-29T14:21:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:22:06 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:22:06 prefetch.2.10.7: 5) 'ncbi-acc:AE014296.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:22:06 prefetch.2.10.7: 6) Downloading 'ncbi-acc:AE014297.2?vdb-ctx=refseq'... 2020-06-29T14:22:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:22:22 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:22:22 prefetch.2.10.7: 6) 'ncbi-acc:AE014297.2?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:22:22 prefetch.2.10.7: 7) Downloading 'ncbi-acc:AE014298.4?vdb-ctx=refseq'... 2020-06-29T14:22:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:22:35 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:22:35 prefetch.2.10.7: 7) 'ncbi-acc:AE014298.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:22:35 prefetch.2.10.7: 8) Downloading 'ncbi-acc:CM000457.1?vdb-ctx=refseq'... 2020-06-29T14:22:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:22:49 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:22:49 prefetch.2.10.7: 8) 'ncbi-acc:CM000457.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:22:49 prefetch.2.10.7: 9) Downloading 'ncbi-acc:CM000458.1?vdb-ctx=refseq'... 2020-06-29T14:22:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:23:00 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:23:00 prefetch.2.10.7: 9) 'ncbi-acc:CM000458.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:23:00 prefetch.2.10.7: 10) Downloading 'ncbi-acc:CM000459.1?vdb-ctx=refseq'... 2020-06-29T14:23:00 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:23:09 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:23:09 prefetch.2.10.7: 10) 'ncbi-acc:CM000459.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:23:09 prefetch.2.10.7: 11) Downloading 'ncbi-acc:FA000001.1?vdb-ctx=refseq'... 2020-06-29T14:23:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:23:22 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:23:22 prefetch.2.10.7: 11) 'ncbi-acc:FA000001.1?vdb-ctx=refseq' was downloaded successfully Read 11861106 spots for SRR1174373/SRR1174373.sra Written 11861106 spots for SRR1174373/SRR1174373.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: 00:04:01 11861106 reads; of these: 11861106 (100.00%) were unpaired; of these: 199874 (1.69%) aligned 0 times 7828864 (66.00%) aligned exactly 1 time 3832368 (32.31%) aligned >1 times 98.31% overall alignment rate Time searching: 00:04:01 Overall time: 00:04:01 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 8 files... [bam_rmdupse_core] 315808 / 11661232 = 0.0271 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 23:33:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.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 23:33:34: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:33:34: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:33:40: 1000000 INFO @ Mon, 29 Jun 2020 23:33:46: 2000000 INFO @ Mon, 29 Jun 2020 23:33:51: 3000000 INFO @ Mon, 29 Jun 2020 23:33:57: 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 @ Mon, 29 Jun 2020 23:34:03: 5000000 INFO @ Mon, 29 Jun 2020 23:34:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.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 23:34:04: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:34:04: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:34:08: 6000000 INFO @ Mon, 29 Jun 2020 23:34:11: 1000000 INFO @ Mon, 29 Jun 2020 23:34:15: 7000000 INFO @ Mon, 29 Jun 2020 23:34:17: 2000000 INFO @ Mon, 29 Jun 2020 23:34:21: 8000000 INFO @ Mon, 29 Jun 2020 23:34:23: 3000000 INFO @ Mon, 29 Jun 2020 23:34:27: 9000000 INFO @ Mon, 29 Jun 2020 23:34:29: 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 @ Mon, 29 Jun 2020 23:34:33: 10000000 INFO @ Mon, 29 Jun 2020 23:34:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.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 23:34:34: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:34:34: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:34:35: 5000000 INFO @ Mon, 29 Jun 2020 23:34:39: 11000000 INFO @ Mon, 29 Jun 2020 23:34:41: 1000000 INFO @ Mon, 29 Jun 2020 23:34:41: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:34:41: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:34:41: #1 total tags in treatment: 11345424 INFO @ Mon, 29 Jun 2020 23:34:41: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:34:41: #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 23:34:42: #1 tags after filtering in treatment: 11345424 INFO @ Mon, 29 Jun 2020 23:34:42: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:34:42: #1 finished! INFO @ Mon, 29 Jun 2020 23:34:42: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:34:42: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:34:42: 6000000 INFO @ Mon, 29 Jun 2020 23:34:42: #2 number of paired peaks: 98 WARNING @ Mon, 29 Jun 2020 23:34:42: Too few paired peaks (98) 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 23:34:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.05_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/dm3/SRX474526/SRX474526.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:34:47: 2000000 INFO @ Mon, 29 Jun 2020 23:34:48: 7000000 INFO @ Mon, 29 Jun 2020 23:34:53: 3000000 INFO @ Mon, 29 Jun 2020 23:34:54: 8000000 INFO @ Mon, 29 Jun 2020 23:35:00: 4000000 INFO @ Mon, 29 Jun 2020 23:35:00: 9000000 INFO @ Mon, 29 Jun 2020 23:35:06: 5000000 INFO @ Mon, 29 Jun 2020 23:35:07: 10000000 INFO @ Mon, 29 Jun 2020 23:35:12: 6000000 INFO @ Mon, 29 Jun 2020 23:35:13: 11000000 INFO @ Mon, 29 Jun 2020 23:35:15: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:35:15: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:35:15: #1 total tags in treatment: 11345424 INFO @ Mon, 29 Jun 2020 23:35:15: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:35:15: #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 23:35:15: #1 tags after filtering in treatment: 11345424 INFO @ Mon, 29 Jun 2020 23:35:15: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:35:15: #1 finished! INFO @ Mon, 29 Jun 2020 23:35:15: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:35:15: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:35:16: #2 number of paired peaks: 98 WARNING @ Mon, 29 Jun 2020 23:35:16: Too few paired peaks (98) 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 23:35:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.10_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/SRX474526/SRX474526.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:35:18: 7000000 INFO @ Mon, 29 Jun 2020 23:35:24: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:35:30: 9000000 INFO @ Mon, 29 Jun 2020 23:35:35: 10000000 INFO @ Mon, 29 Jun 2020 23:35:41: 11000000 INFO @ Mon, 29 Jun 2020 23:35:43: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:35:43: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:35:43: #1 total tags in treatment: 11345424 INFO @ Mon, 29 Jun 2020 23:35:43: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:35:43: #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 23:35:43: #1 tags after filtering in treatment: 11345424 INFO @ Mon, 29 Jun 2020 23:35:43: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:35:43: #1 finished! INFO @ Mon, 29 Jun 2020 23:35:43: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:35:43: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:35:44: #2 number of paired peaks: 98 WARNING @ Mon, 29 Jun 2020 23:35:44: Too few paired peaks (98) 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 23:35:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.20_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/SRX474526/SRX474526.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474526/SRX474526.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。