Job ID = 6626905 SRX = SRX7780053 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-13T23:58:06 prefetch.2.10.7: 1) Downloading 'SRR11143808'... 2020-07-13T23:58:06 prefetch.2.10.7: Downloading via HTTPS... 2020-07-14T00:24:38 prefetch.2.10.7: HTTPS download failed 2020-07-14T00:24:38 prefetch.2.10.7: 1) failed to download SRR11143808 2020-07-14T00:24:48 prefetch.2.10.7: 1) Downloading 'SRR11143808'... 2020-07-14T00:24:48 prefetch.2.10.7: Downloading via HTTPS... 2020-07-14T00:24:48 prefetch.2.10.7: Continue download of 'SRR11143808' from 1517288763 2020-07-14T00:24:52 prefetch.2.10.7: HTTPS download succeed 2020-07-14T00:24:52 prefetch.2.10.7: 1) 'SRR11143808' was downloaded successfully Read 30093259 spots for SRR11143808/SRR11143808.sra Written 30093259 spots for SRR11143808/SRR11143808.sra fastq に変換しました。 bowtie でマッピング中... Your job 6627187 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:09:03 30093259 reads; of these: 30093259 (100.00%) were unpaired; of these: 2462071 (8.18%) aligned 0 times 20461869 (67.99%) aligned exactly 1 time 7169319 (23.82%) aligned >1 times 91.82% overall alignment rate Time searching: 00:09:03 Overall time: 00:09:03 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] 6569835 / 27631188 = 0.2378 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 @ Tue, 14 Jul 2020 09:41:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.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 @ Tue, 14 Jul 2020 09:41:33: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:41:33: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:41:39: 1000000 INFO @ Tue, 14 Jul 2020 09:41:45: 2000000 INFO @ Tue, 14 Jul 2020 09:41:50: 3000000 INFO @ Tue, 14 Jul 2020 09:41:56: 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 @ Tue, 14 Jul 2020 09:42:02: 5000000 INFO @ Tue, 14 Jul 2020 09:42:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.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 @ Tue, 14 Jul 2020 09:42:03: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:42:03: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:42:09: 6000000 INFO @ Tue, 14 Jul 2020 09:42:10: 1000000 INFO @ Tue, 14 Jul 2020 09:42:16: 7000000 INFO @ Tue, 14 Jul 2020 09:42:17: 2000000 INFO @ Tue, 14 Jul 2020 09:42:23: 8000000 INFO @ Tue, 14 Jul 2020 09:42:24: 3000000 INFO @ Tue, 14 Jul 2020 09:42:30: 9000000 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 @ Tue, 14 Jul 2020 09:42:31: 4000000 INFO @ Tue, 14 Jul 2020 09:42:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.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 @ Tue, 14 Jul 2020 09:42:33: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:42:33: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:42:37: 10000000 INFO @ Tue, 14 Jul 2020 09:42:39: 5000000 INFO @ Tue, 14 Jul 2020 09:42:40: 1000000 INFO @ Tue, 14 Jul 2020 09:42:44: 11000000 INFO @ Tue, 14 Jul 2020 09:42:46: 6000000 INFO @ Tue, 14 Jul 2020 09:42:47: 2000000 INFO @ Tue, 14 Jul 2020 09:42:51: 12000000 INFO @ Tue, 14 Jul 2020 09:42:54: 7000000 INFO @ Tue, 14 Jul 2020 09:42:55: 3000000 INFO @ Tue, 14 Jul 2020 09:42:58: 13000000 INFO @ Tue, 14 Jul 2020 09:43:01: 8000000 INFO @ Tue, 14 Jul 2020 09:43:02: 4000000 INFO @ Tue, 14 Jul 2020 09:43:04: 14000000 INFO @ Tue, 14 Jul 2020 09:43:08: 9000000 INFO @ Tue, 14 Jul 2020 09:43:10: 5000000 INFO @ Tue, 14 Jul 2020 09:43:11: 15000000 INFO @ Tue, 14 Jul 2020 09:43:16: 10000000 INFO @ Tue, 14 Jul 2020 09:43:17: 6000000 INFO @ Tue, 14 Jul 2020 09:43:18: 16000000 INFO @ Tue, 14 Jul 2020 09:43:23: 11000000 INFO @ Tue, 14 Jul 2020 09:43:24: 7000000 INFO @ Tue, 14 Jul 2020 09:43:25: 17000000 INFO @ Tue, 14 Jul 2020 09:43:30: 12000000 INFO @ Tue, 14 Jul 2020 09:43:31: 18000000 INFO @ Tue, 14 Jul 2020 09:43:32: 8000000 INFO @ Tue, 14 Jul 2020 09:43:38: 13000000 INFO @ Tue, 14 Jul 2020 09:43:38: 19000000 INFO @ Tue, 14 Jul 2020 09:43:39: 9000000 INFO @ Tue, 14 Jul 2020 09:43:45: 14000000 INFO @ Tue, 14 Jul 2020 09:43:45: 20000000 INFO @ Tue, 14 Jul 2020 09:43:46: 10000000 INFO @ Tue, 14 Jul 2020 09:43:52: 21000000 INFO @ Tue, 14 Jul 2020 09:43:53: 15000000 INFO @ Tue, 14 Jul 2020 09:43:53: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 09:43:53: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 09:43:53: #1 total tags in treatment: 21061353 INFO @ Tue, 14 Jul 2020 09:43:53: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:43:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 09:43:53: #1 tags after filtering in treatment: 21061353 INFO @ Tue, 14 Jul 2020 09:43:53: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 09:43:53: #1 finished! INFO @ Tue, 14 Jul 2020 09:43:53: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:43:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:43:54: 11000000 INFO @ Tue, 14 Jul 2020 09:43:55: #2 number of paired peaks: 5 WARNING @ Tue, 14 Jul 2020 09:43:55: Too few paired peaks (5) 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 @ Tue, 14 Jul 2020 09:43:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 09:44:00: 16000000 INFO @ Tue, 14 Jul 2020 09:44:01: 12000000 INFO @ Tue, 14 Jul 2020 09:44:07: 17000000 INFO @ Tue, 14 Jul 2020 09:44:09: 13000000 INFO @ Tue, 14 Jul 2020 09:44:14: 18000000 INFO @ Tue, 14 Jul 2020 09:44:16: 14000000 INFO @ Tue, 14 Jul 2020 09:44:22: 19000000 INFO @ Tue, 14 Jul 2020 09:44:23: 15000000 INFO @ Tue, 14 Jul 2020 09:44:29: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 09:44:31: 16000000 INFO @ Tue, 14 Jul 2020 09:44:37: 21000000 INFO @ Tue, 14 Jul 2020 09:44:37: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 09:44:37: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 09:44:37: #1 total tags in treatment: 21061353 INFO @ Tue, 14 Jul 2020 09:44:37: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:44:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 09:44:38: #1 tags after filtering in treatment: 21061353 INFO @ Tue, 14 Jul 2020 09:44:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 09:44:38: #1 finished! INFO @ Tue, 14 Jul 2020 09:44:38: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:44:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:44:38: 17000000 INFO @ Tue, 14 Jul 2020 09:44:39: #2 number of paired peaks: 5 WARNING @ Tue, 14 Jul 2020 09:44:39: Too few paired peaks (5) 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 @ Tue, 14 Jul 2020 09:44:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.10_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/SRX7780053/SRX7780053.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 09:44:45: 18000000 INFO @ Tue, 14 Jul 2020 09:44:52: 19000000 INFO @ Tue, 14 Jul 2020 09:44:59: 20000000 INFO @ Tue, 14 Jul 2020 09:45:06: 21000000 INFO @ Tue, 14 Jul 2020 09:45:06: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 09:45:06: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 09:45:06: #1 total tags in treatment: 21061353 INFO @ Tue, 14 Jul 2020 09:45:06: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:45:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 09:45:06: #1 tags after filtering in treatment: 21061353 INFO @ Tue, 14 Jul 2020 09:45:06: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 09:45:06: #1 finished! INFO @ Tue, 14 Jul 2020 09:45:06: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:45:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:45:08: #2 number of paired peaks: 5 WARNING @ Tue, 14 Jul 2020 09:45:08: Too few paired peaks (5) 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 @ Tue, 14 Jul 2020 09:45:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.20_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/SRX7780053/SRX7780053.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780053/SRX7780053.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。