Job ID = 6527560 SRX = SRX1115694 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:00:53 prefetch.2.10.7: 1) Downloading 'SRR2124123'... 2020-06-29T13:00:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:03:17 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:03:17 prefetch.2.10.7: 1) 'SRR2124123' was downloaded successfully 2020-06-29T13:04:08 prefetch.2.10.7: 'SRR2124123' has 10 unresolved dependencies 2020-06-29T13:04:08 prefetch.2.10.7: 2) Downloading 'ncbi-acc:AE013599.4?vdb-ctx=refseq'... 2020-06-29T13:04:08 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:04:21 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:04:21 prefetch.2.10.7: 2) 'ncbi-acc:AE013599.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:04:21 prefetch.2.10.7: 3) Downloading 'ncbi-acc:AE014134.5?vdb-ctx=refseq'... 2020-06-29T13:04:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:04:39 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:04:39 prefetch.2.10.7: 3) 'ncbi-acc:AE014134.5?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:04:39 prefetch.2.10.7: 4) Downloading 'ncbi-acc:AE014135.3?vdb-ctx=refseq'... 2020-06-29T13:04:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:04:51 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:04:51 prefetch.2.10.7: 4) 'ncbi-acc:AE014135.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:04:51 prefetch.2.10.7: 5) Downloading 'ncbi-acc:AE014296.4?vdb-ctx=refseq'... 2020-06-29T13:04:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:05:05 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:05:05 prefetch.2.10.7: 5) 'ncbi-acc:AE014296.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:05:05 prefetch.2.10.7: 6) Downloading 'ncbi-acc:AE014297.2?vdb-ctx=refseq'... 2020-06-29T13:05:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:05:19 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:05:19 prefetch.2.10.7: 6) 'ncbi-acc:AE014297.2?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:05:19 prefetch.2.10.7: 7) Downloading 'ncbi-acc:AE014298.4?vdb-ctx=refseq'... 2020-06-29T13:05:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:05:32 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:05:32 prefetch.2.10.7: 7) 'ncbi-acc:AE014298.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:05:32 prefetch.2.10.7: 8) Downloading 'ncbi-acc:CM000457.1?vdb-ctx=refseq'... 2020-06-29T13:05:32 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:05:45 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:05:45 prefetch.2.10.7: 8) 'ncbi-acc:CM000457.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:05:45 prefetch.2.10.7: 9) Downloading 'ncbi-acc:CM000458.1?vdb-ctx=refseq'... 2020-06-29T13:05:45 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:05:55 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:05:55 prefetch.2.10.7: 9) 'ncbi-acc:CM000458.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:05:55 prefetch.2.10.7: 10) Downloading 'ncbi-acc:CM000459.1?vdb-ctx=refseq'... 2020-06-29T13:05:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:06:04 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:06:04 prefetch.2.10.7: 10) 'ncbi-acc:CM000459.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:06:04 prefetch.2.10.7: 11) Downloading 'ncbi-acc:FA000001.1?vdb-ctx=refseq'... 2020-06-29T13:06:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:06:15 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:06:15 prefetch.2.10.7: 11) 'ncbi-acc:FA000001.1?vdb-ctx=refseq' was downloaded successfully Read 24570178 spots for SRR2124123/SRR2124123.sra Written 24570178 spots for SRR2124123/SRR2124123.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: 00:06:49 24570178 reads; of these: 24570178 (100.00%) were unpaired; of these: 790433 (3.22%) aligned 0 times 18127616 (73.78%) aligned exactly 1 time 5652129 (23.00%) aligned >1 times 96.78% overall alignment rate Time searching: 00:06:49 Overall time: 00:06:49 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] 2465352 / 23779745 = 0.1037 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 22:24:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.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 22:24:21: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:24:21: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:24:27: 1000000 INFO @ Mon, 29 Jun 2020 22:24:33: 2000000 INFO @ Mon, 29 Jun 2020 22:24:39: 3000000 INFO @ Mon, 29 Jun 2020 22:24:45: 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 22:24:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.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 22:24:51: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:24:51: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:24:51: 5000000 INFO @ Mon, 29 Jun 2020 22:24:57: 1000000 INFO @ Mon, 29 Jun 2020 22:24:58: 6000000 INFO @ Mon, 29 Jun 2020 22:25:03: 2000000 INFO @ Mon, 29 Jun 2020 22:25:05: 7000000 INFO @ Mon, 29 Jun 2020 22:25:08: 3000000 INFO @ Mon, 29 Jun 2020 22:25:11: 8000000 INFO @ Mon, 29 Jun 2020 22:25:14: 4000000 INFO @ Mon, 29 Jun 2020 22:25:16: 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 @ Mon, 29 Jun 2020 22:25:20: 5000000 INFO @ Mon, 29 Jun 2020 22:25:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.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 22:25:21: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:25:21: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:25:22: 10000000 INFO @ Mon, 29 Jun 2020 22:25:26: 6000000 INFO @ Mon, 29 Jun 2020 22:25:27: 11000000 INFO @ Mon, 29 Jun 2020 22:25:27: 1000000 INFO @ Mon, 29 Jun 2020 22:25:31: 7000000 INFO @ Mon, 29 Jun 2020 22:25:33: 12000000 INFO @ Mon, 29 Jun 2020 22:25:34: 2000000 INFO @ Mon, 29 Jun 2020 22:25:37: 8000000 INFO @ Mon, 29 Jun 2020 22:25:39: 13000000 INFO @ Mon, 29 Jun 2020 22:25:41: 3000000 INFO @ Mon, 29 Jun 2020 22:25:43: 9000000 INFO @ Mon, 29 Jun 2020 22:25:45: 14000000 INFO @ Mon, 29 Jun 2020 22:25:47: 4000000 INFO @ Mon, 29 Jun 2020 22:25:49: 10000000 INFO @ Mon, 29 Jun 2020 22:25:51: 15000000 INFO @ Mon, 29 Jun 2020 22:25:53: 5000000 INFO @ Mon, 29 Jun 2020 22:25:55: 11000000 INFO @ Mon, 29 Jun 2020 22:25:57: 16000000 INFO @ Mon, 29 Jun 2020 22:26:00: 6000000 INFO @ Mon, 29 Jun 2020 22:26:01: 12000000 INFO @ Mon, 29 Jun 2020 22:26:02: 17000000 INFO @ Mon, 29 Jun 2020 22:26:07: 7000000 INFO @ Mon, 29 Jun 2020 22:26:07: 13000000 INFO @ Mon, 29 Jun 2020 22:26:08: 18000000 INFO @ Mon, 29 Jun 2020 22:26:13: 14000000 INFO @ Mon, 29 Jun 2020 22:26:13: 8000000 INFO @ Mon, 29 Jun 2020 22:26:14: 19000000 INFO @ Mon, 29 Jun 2020 22:26:19: 15000000 INFO @ Mon, 29 Jun 2020 22:26:20: 20000000 INFO @ Mon, 29 Jun 2020 22:26:20: 9000000 INFO @ Mon, 29 Jun 2020 22:26:25: 16000000 INFO @ Mon, 29 Jun 2020 22:26:25: 21000000 INFO @ Mon, 29 Jun 2020 22:26:26: 10000000 INFO @ Mon, 29 Jun 2020 22:26:27: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:26:27: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:26:27: #1 total tags in treatment: 21314393 INFO @ Mon, 29 Jun 2020 22:26:27: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:26:27: #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 22:26:28: #1 tags after filtering in treatment: 21314393 INFO @ Mon, 29 Jun 2020 22:26:28: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:26:28: #1 finished! INFO @ Mon, 29 Jun 2020 22:26:28: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:26:28: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:26:29: #2 number of paired peaks: 9 WARNING @ Mon, 29 Jun 2020 22:26:29: Too few paired peaks (9) 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 22:26:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.05_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/SRX1115694/SRX1115694.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:26:31: 17000000 INFO @ Mon, 29 Jun 2020 22:26:32: 11000000 INFO @ Mon, 29 Jun 2020 22:26:36: 18000000 INFO @ Mon, 29 Jun 2020 22:26:39: 12000000 INFO @ Mon, 29 Jun 2020 22:26:42: 19000000 INFO @ Mon, 29 Jun 2020 22:26:45: 13000000 INFO @ Mon, 29 Jun 2020 22:26:48: 20000000 INFO @ Mon, 29 Jun 2020 22:26:52: 14000000 INFO @ Mon, 29 Jun 2020 22:26:54: 21000000 INFO @ Mon, 29 Jun 2020 22:26:55: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:26:55: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:26:55: #1 total tags in treatment: 21314393 INFO @ Mon, 29 Jun 2020 22:26:55: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:26:55: #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 22:26:56: #1 tags after filtering in treatment: 21314393 INFO @ Mon, 29 Jun 2020 22:26:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:26:56: #1 finished! INFO @ Mon, 29 Jun 2020 22:26:56: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:26:56: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:26:57: #2 number of paired peaks: 9 WARNING @ Mon, 29 Jun 2020 22:26:57: Too few paired peaks (9) 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 22:26:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.10_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/SRX1115694/SRX1115694.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:26:58: 15000000 INFO @ Mon, 29 Jun 2020 22:27:04: 16000000 INFO @ Mon, 29 Jun 2020 22:27:10: 17000000 INFO @ Mon, 29 Jun 2020 22:27:16: 18000000 INFO @ Mon, 29 Jun 2020 22:27:22: 19000000 INFO @ Mon, 29 Jun 2020 22:27:29: 20000000 INFO @ Mon, 29 Jun 2020 22:27:35: 21000000 INFO @ Mon, 29 Jun 2020 22:27:37: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:27:37: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:27:37: #1 total tags in treatment: 21314393 INFO @ Mon, 29 Jun 2020 22:27:37: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:27:37: #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 22:27:37: #1 tags after filtering in treatment: 21314393 INFO @ Mon, 29 Jun 2020 22:27:37: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:27:37: #1 finished! INFO @ Mon, 29 Jun 2020 22:27:37: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:27:37: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:27:38: #2 number of paired peaks: 9 WARNING @ Mon, 29 Jun 2020 22:27:38: Too few paired peaks (9) 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 22:27:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.20_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/SRX1115694/SRX1115694.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115694/SRX1115694.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。