+
+
+
+
+
+
+
+
Convert standard gff format files to standard gtf
+ format
+
+
+
+
-
\ No newline at end of file
+
+
diff --git a/test.py b/test.py
index 67d237b..7c84751 100644
--- a/test.py
+++ b/test.py
@@ -1184,9 +1184,12 @@
#
-a = "font_color, x_color, x_axis_color, y_color, y_axis_color, line_color, color, line_color_bar, color_bar, y_color_bar, y_axis_color_bar, x_axis_color_bar, background"
+# a = "font_color, x_color, x_axis_color, y_color, y_axis_color, line_color, color, line_color_bar, color_bar, y_color_bar, y_axis_color_bar, x_axis_color_bar, background"
+#
+# a = a.split(",")
+# for i in a:
+# i = i.strip()
+# print(f"{{'name': '{i}', 'value': '', 'astrict': ''}},")
-a = a.split(",")
-for i in a:
- i = i.strip()
- print(f"{{'name': '{i}', 'value': '', 'astrict': ''}},")
+for i in range(26):
+ print(f'
')
diff --git a/tools/urls.py b/tools/urls.py
index 51f10c9..ada5639 100644
--- a/tools/urls.py
+++ b/tools/urls.py
@@ -4,7 +4,7 @@ from tools import views
urlpatterns = [
url("(.*\.html$)", views.out_page),
- url("id_transform", views.id_transform),
url("gen_to_fa", views.gen_to_fa),
+ url("gff_to_gtf", views.gff_to_gtf),
url("blast", views.blast)
]
diff --git a/tools/views.py b/tools/views.py
index ac755b0..2407d1e 100644
--- a/tools/views.py
+++ b/tools/views.py
@@ -3,7 +3,7 @@ import os, time
from django.http import JsonResponse
from django.shortcuts import render
from chart import tools
-from Bio.SeqRecord import SeqRecord
+from Bio import SeqIO
def out_page(request, page):
@@ -18,8 +18,8 @@ def id_transform(request):
return JsonResponse({})
return JsonResponse({})
-def blast(request):
+def blast(request):
file1 = request.FILES.get('file1', None)
pass
@@ -27,10 +27,42 @@ def blast(request):
def gen_to_fa(request):
file = request.FILES.get("file")
file_path, file_id = tools.path_out("chart")
- keep_file(file, file_path)
+ tools.keep_file(file, file_path)
data = {"id": file_id}
- time.sleep(1)
- # records = SeqIO.parse(file_path, "genbank") # 读入
- # SeqIO.write(records, f"{file_path}", "fasta") # 写出
-
+ records = SeqIO.parse(file_path, "genbank") # 读入
+ SeqIO.write(records, f"{file_path}.fasta", "fasta") # 写出
+ return JsonResponse(data)
+
+
+def gff_to_gtf(request):
+ file = request.FILES.get("file")
+ file_path, file_id = tools.path_out("chart")
+ tools.keep_file(file, file_path)
+ data = {"id": file_id}
+ os.system(f"{tools.tools_path}/gffread {file_path} -T -o {file_path}.gtf")
+ return JsonResponse(data)
+
+
+def gff_to_gtf(request):
+ file = request.FILES.get("file")
+ file_path, file_id = tools.path_out("chart")
+ tools.keep_file(file, file_path)
+ data = {"id": file_id}
+ os.system(f"{tools.tools_path}/gffread {file_path} -T -o {file_path}.gtf")
+ return JsonResponse(data)
+
+
+def orf(request):
+ file = request.FILES.get("file", None)
+ begin = request.POST.get("begin", None)
+ end = request.POST.get("end", None)
+ Cyclotype = request.POST.get("Cyclotype", None)
+ Codons = request.POST.get("Codons", None)
+ outfmt = request.POST.get("outfmt", None)
+
+ file_path, file_id = tools.path_out("chart")
+ tools.keep_file(file, file_path)
+ data = {"id": file_id}
+ os.system(
+ f"{tools.tools_path}/ORFfinder {file_path} -b {begin} -e {end} -c {'t' if Cyclotype == 'YES' else 'f'} -g {Codons} -outfmt {outfmt} -out {file_path}.txt")
return JsonResponse(data)
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/blast_formatter b/tools_sofa/blast_formatter
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/blast_formatter
rename to tools_sofa/blast_formatter
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/blastdb_aliastool b/tools_sofa/blastdb_aliastool
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/blastdb_aliastool
rename to tools_sofa/blastdb_aliastool
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/blastdbcheck b/tools_sofa/blastdbcheck
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/blastdbcheck
rename to tools_sofa/blastdbcheck
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/blastdbcmd b/tools_sofa/blastdbcmd
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/blastdbcmd
rename to tools_sofa/blastdbcmd
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/blastn b/tools_sofa/blastn
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/blastn
rename to tools_sofa/blastn
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/blastp b/tools_sofa/blastp
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/blastp
rename to tools_sofa/blastp
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/blastx b/tools_sofa/blastx
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/blastx
rename to tools_sofa/blastx
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/cleanup-blastdb-volumes.py b/tools_sofa/cleanup-blastdb-volumes.py
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/cleanup-blastdb-volumes.py
rename to tools_sofa/cleanup-blastdb-volumes.py
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/convert2blastmask b/tools_sofa/convert2blastmask
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/convert2blastmask
rename to tools_sofa/convert2blastmask
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/deltablast b/tools_sofa/deltablast
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/deltablast
rename to tools_sofa/deltablast
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/dustmasker b/tools_sofa/dustmasker
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/dustmasker
rename to tools_sofa/dustmasker
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/get_species_taxids.sh b/tools_sofa/get_species_taxids.sh
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/get_species_taxids.sh
rename to tools_sofa/get_species_taxids.sh
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/legacy_blast.pl b/tools_sofa/legacy_blast.pl
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/legacy_blast.pl
rename to tools_sofa/legacy_blast.pl
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/makeblastdb b/tools_sofa/makeblastdb
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/makeblastdb
rename to tools_sofa/makeblastdb
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/makembindex b/tools_sofa/makembindex
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/makembindex
rename to tools_sofa/makembindex
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/makeprofiledb b/tools_sofa/makeprofiledb
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/makeprofiledb
rename to tools_sofa/makeprofiledb
diff --git a/tools_sofa/ncbi-blast-2.12.0+/ChangeLog b/tools_sofa/ncbi-blast-2.12.0+/ChangeLog
deleted file mode 100644
index 1b571fa..0000000
--- a/tools_sofa/ncbi-blast-2.12.0+/ChangeLog
+++ /dev/null
@@ -1,2 +0,0 @@
-The BLAST+ release notes can be found in
-http://www.ncbi.nlm.nih.gov/books/NBK131777
diff --git a/tools_sofa/ncbi-blast-2.12.0+/LICENSE b/tools_sofa/ncbi-blast-2.12.0+/LICENSE
deleted file mode 100644
index dd0d332..0000000
--- a/tools_sofa/ncbi-blast-2.12.0+/LICENSE
+++ /dev/null
@@ -1,20 +0,0 @@
- PUBLIC DOMAIN NOTICE
- National Center for Biotechnology Information
-
- This software/database is a "United States Government Work" under the
- terms of the United States Copyright Act. It was written as part of
- the author's official duties as a United States Government employee and
- thus cannot be copyrighted. This software/database is freely available
- to the public for use. The National Library of Medicine and the U.S.
- Government have not placed any restriction on its use or reproduction.
-
- Although all reasonable efforts have been taken to ensure the accuracy
- and reliability of the software and data, the NLM and the U.S.
- Government do not and cannot warrant the performance or results that
- may be obtained by using this software or data. The NLM and the U.S.
- Government disclaim all warranties, express or implied, including
- warranties of performance, merchantability or fitness for any particular
- purpose.
-
- Please cite the author in any work or product based on this material.
-
diff --git a/tools_sofa/ncbi-blast-2.12.0+/README b/tools_sofa/ncbi-blast-2.12.0+/README
deleted file mode 100644
index b5b1764..0000000
--- a/tools_sofa/ncbi-blast-2.12.0+/README
+++ /dev/null
@@ -1,10 +0,0 @@
-BLAST Command Line Applications
-
-The NCBI Basic Local Alignment Search Tool (BLAST) finds regions of
-local similarity between sequences. The program compares nucleotide or
-protein sequences to sequence databases and calculates the statistical
-significance of matches. BLAST can be used to infer functional and
-evolutionary relationships between sequences as well as help identify
-members of gene families.
-
-For more information, visit http://blast.ncbi.nlm.nih.gov
diff --git a/tools_sofa/ncbi-blast-2.12.0+/doc/README.txt b/tools_sofa/ncbi-blast-2.12.0+/doc/README.txt
deleted file mode 100644
index 0b7325f..0000000
--- a/tools_sofa/ncbi-blast-2.12.0+/doc/README.txt
+++ /dev/null
@@ -1,2 +0,0 @@
-The user manual is available in http://www.ncbi.nlm.nih.gov/books/NBK279690
-Release notes are available in http://www.ncbi.nlm.nih.gov/books/NBK131777
diff --git a/tools_sofa/ncbi-blast-2.12.0+/ncbi_package_info b/tools_sofa/ncbi-blast-2.12.0+/ncbi_package_info
deleted file mode 100644
index 5fcbc47..0000000
--- a/tools_sofa/ncbi-blast-2.12.0+/ncbi_package_info
+++ /dev/null
@@ -1,318 +0,0 @@
-PACKAGE_NAME: blast
-PACKAGE_VERSION: 2.12.0
-PACKAGE_SIGNATURE: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
-PACKAGE_CONFIG: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
-
->>>>> blastp
-
-blastp: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:05:30
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: blastp
-
-
-
->>>>> blastn
-
-blastn: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:04:48
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: blastn
-
-
-
->>>>> blastx
-
-blastx: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:06:05
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: blastx
-
-
-
->>>>> tblastn
-
-tblastn: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 03:59:59
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: tblastn
-
-
-
->>>>> tblastx
-
-tblastx: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:00:10
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: tblastx
-
-
-
->>>>> psiblast
-
-psiblast: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:08:20
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: psiblast
-
-
-
->>>>> rpsblast
-
-rpsblast: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:09:50
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: rpsblast
-
-
-
->>>>> rpstblastn
-
-rpstblastn: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:10:05
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: rpstblastn
-
-
-
->>>>> makembindex
-
-makembindex: 2.12.0
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:07:14
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: makembindex
-
-
-
->>>>> segmasker
-
-segmasker: 1.0.0
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:10:41
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: segmasker
-
-
-
->>>>> dustmasker
-
-dustmasker: 1.0.0
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:06:36
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: dustmasker
-
-
-
->>>>> windowmasker
-
-windowmasker: 1.0.0
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:01:00
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: windowmasker
-
- window-masker-algorithm:1.0.0
-
- windowmasker-statistics-algorithm-version:1.0.0
-
- windowmasker-statistics-format-version:ascii 1.0.0
-
- windowmasker-statistics-format-version:binary 1.0.0
-
- windowmasker-statistics-format-version:oascii 1.0.0
-
- windowmasker-statistics-format-version:obinary 1.0.0
-
-
-
->>>>> deltablast
-
-deltablast: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:06:16
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: deltablast
-
-
-
->>>>> makeblastdb
-
-makeblastdb: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:07:11
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: makeblastdb
-
-
-
->>>>> blastdbcmd
-
-blastdbcmd: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:03:26
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: blastdbcmd
-
-
-
->>>>> blastdb_aliastool
-
-blastdb_aliastool: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:03:01
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: blastdb_aliastool
-
-
-
->>>>> convert2blastmask
-
-convert2blastmask: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:06:02
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: convert2blastmask
-
-
-
->>>>> blastdbcheck
-
-blastdbcheck: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:03:26
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: blastdbcheck
-
-
-
->>>>> makeprofiledb
-
-makeprofiledb: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:07:32
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: makeprofiledb
-
-
-
->>>>> blast_formatter
-
-blast_formatter: 2.12.0+
- Package: blast 2.12.0, build Jun 4 2021 03:22:54
- Package-Config: Linux64-Centos : icc : ./c++/compilers/unix/ICC.sh 1900 --with-static --without-dll --with-bin-release --with-strip --without-debug --without-pcre --with-mt --with-openmp --with-flat-makefile --with-experimental=Int8GI --without-vdb --without-gnutls --without-gcrypt --with-build-root-sfx=--Linux64-Centos-icc --with-flat-makefile --with-ncbi-public --without-ccache --without-caution --without-runpath --without-makefile-auto-update --with-projects=scripts/projects/blast/project.lst --with-internal
- Build-Signature: ICC_1903-ReleaseMT64--x86_64-unknown-linux3.10.0-gnu2.17-coremake11
- GI-64bit: TRUE
- Build-Date: Jun 4 2021 04:02:40
- Build-ID: 3941d291-f11b-4411-86ee-a368e73d3243
- Subversion-Revision: 632667
- Production-Version: 20210411
- Built-As: blast_formatter
-
-
-
-
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/psiblast b/tools_sofa/psiblast
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/psiblast
rename to tools_sofa/psiblast
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/rpsblast b/tools_sofa/rpsblast
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/rpsblast
rename to tools_sofa/rpsblast
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/rpstblastn b/tools_sofa/rpstblastn
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/rpstblastn
rename to tools_sofa/rpstblastn
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/segmasker b/tools_sofa/segmasker
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/segmasker
rename to tools_sofa/segmasker
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/tblastn b/tools_sofa/tblastn
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/tblastn
rename to tools_sofa/tblastn
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/tblastx b/tools_sofa/tblastx
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/tblastx
rename to tools_sofa/tblastx
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/update_blastdb.pl b/tools_sofa/update_blastdb.pl
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/update_blastdb.pl
rename to tools_sofa/update_blastdb.pl
diff --git a/tools_sofa/ncbi-blast-2.12.0+/bin/windowmasker b/tools_sofa/windowmasker
similarity index 100%
rename from tools_sofa/ncbi-blast-2.12.0+/bin/windowmasker
rename to tools_sofa/windowmasker