slackbuilds_ponce/academic
Pedro Mendes 5fad810a40
academic/copasi: Updated for version 4.40.278.
Signed-off-by: bedlam <dave@slackbuilds.org>

Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
2023-06-10 14:01:22 +07:00
..
3D-ICE academic/3D-ICE: Added (Thermal Emulator Library). 2022-12-03 11:30:33 +07:00
abntex
aenig4
aeskulap
aline
aliview academic/aliview: Updated for version 1.28. 2022-07-29 21:57:48 +07:00
AlphaPlot
amd academic/amd: Align with template. 2023-05-20 11:17:28 +07:00
amplicon
amplifx academic/amplifx: Fix ARCH section. 2023-05-20 11:17:57 +07:00
antiprism
archaeopteryx
aris academic/aris: New maintainer. Update patch. 2022-08-13 10:40:37 +07:00
arka
armadillo
arpack
arpack-ng academic/arpack-ng: Align with template. 2023-05-20 11:17:28 +07:00
artha
avl
avogadroapp academic/avogadroapp: Updated for version 1.97.0. 2022-08-13 10:40:39 +07:00
avogadrolibs academic/avogadrolibs: Add VTK as optional dependency. 2023-04-15 07:15:24 +07:00
bcftools academic/bcftools: Updated for version 1.17. 2023-04-15 07:15:39 +07:00
bedGraphToBigWig
bedtools
biblesync
bibletime academic/bibletime: Update email address. 2022-06-09 13:19:35 -04:00
bibus
biopython academic/biopython: Updated for version 1.81. 2023-04-22 11:38:31 +07:00
boinc academic/boinc: Fix rc.boinc variables, remove extraneous characters 2023-05-13 19:27:30 +07:00
bowtie academic/bowtie: Updated for version 1.3.1. 2022-10-15 10:47:26 +07:00
bowtie2 academic/bowtie2: Updated for version 2.5.1. 2023-04-15 07:15:38 +07:00
bowtie2-legacy
bpp-core academic/bpp-core: Added (Bio++ Core Library) 2022-09-08 08:11:03 +01:00
bpp-phyl academic/bpp-phyl: Added (Bio++ Phylogenetic Library) 2022-09-08 08:11:03 +01:00
bpp-phyl-omics academic/bpp-phyl-omics: Added (Bio++ Phylogenetic Omics Library) 2022-09-08 08:11:04 +01:00
bpp-popgen academic/bpp-popgen: Added (Bio++ Population Genetics Library) 2022-09-08 08:11:04 +01:00
bpp-seq academic/bpp-seq: Added (Bio++ Sequence library) 2022-09-08 08:11:03 +01:00
bpp-seq-omics academic/bpp-seq-omics: Added (Bio++ Sequence Omics Library) 2022-09-08 08:11:03 +01:00
bpp1.9-numcalc academic/bpp1.9-numcalc: Added (Bio++ 1.9 NumCalc Library) 2022-09-09 02:55:53 +01:00
bpp1.9-phyl academic/bpp1.9-phyl: Added (Bio++ 1.9 Phyl Library) 2022-09-09 03:07:45 +01:00
bpp1.9-seq academic/bpp1.9-seq: Added (Bio++ 1.9 Seq Library) 2022-09-09 02:58:46 +01:00
bpp1.9-utils academic/bpp1.9-utils: Added (Bio++ 1.9 Utils Library) 2022-09-09 02:53:27 +01:00
bppsuite academic/bppsuite: Added (Bio++ program suite) 2022-09-08 08:11:04 +01:00
btf academic/btf: Align with template. 2023-05-20 11:17:28 +07:00
bwa
cadabra2 academic/cadabra2: Update REQUIRES. 2023-04-29 18:11:43 +07:00
CAFS_divergence academic/CAFS_divergence: Fix ARCH section. 2023-05-20 11:17:57 +07:00
calc academic/calc: Updated for version 2.14.1.5. 2023-05-27 08:08:51 +07:00
calcoo
camd academic/camd: Align with template. 2023-05-20 11:17:28 +07:00
cap3 academic/cap3: DOWLOAD updated. 2022-08-06 20:16:08 +07:00
CAPS_coevolution academic/CAPS_coevolution: Fix ARCH section. 2023-05-20 11:17:57 +07:00
cblas academic/cblas: Align with template. 2023-05-20 11:17:28 +07:00
ccolamd academic/ccolamd: Align with template. 2023-05-20 11:17:29 +07:00
cdo academic/cdo: Updated for version 2.2.0. 2023-05-20 11:17:24 +07:00
celestia
chartgeany
chemtool
cholmod academic/cholmod: Align with template. 2023-05-20 11:17:29 +07:00
cistrome-CEAS
cistrome-conductGO
cistrome-extra
cistrome-MACS
cistrome-mdseqpos academic/cistrome-mdseqpos: Fix deps. 2022-11-12 22:33:12 +07:00
clark-ugene
cld2
clustalo
clustalw
clustalx academic/clustalx: Updated to use qmake-qt5. BUILD bumped. 2022-08-06 20:16:07 +07:00
colamd academic/colamd: Align with template. 2023-05-20 11:17:29 +07:00
colin academic/colin: Use template TMP assignment. 2023-05-20 11:17:27 +07:00
convertall
copasi academic/copasi: Updated for version 4.40.278. 2023-06-10 14:01:22 +07:00
cryptominisat academic/cryptominisat: Updated for version 5.11.3. 2022-10-15 10:47:22 +07:00
csparse academic/csparse: Align with template. 2023-05-20 11:17:29 +07:00
cufflinks
cutadapt
cvc4
cxsparse academic/cxsparse: Align with template. 2023-05-20 11:17:29 +07:00
dakota academic/dakota: Updated for version 6.17.0. 2023-01-28 08:23:05 +07:00
Data2FCS
datamash academic/datamash: Updated for version 1.8. 2022-09-04 04:44:58 +01:00
DendroPy academic/DendroPy: Updated for version 4.5.1. 2022-09-08 08:11:03 +01:00
diamond
dimod academic/dimod: Added (A shared API for samplers) 2022-11-12 22:32:58 +07:00
DRAMPower academic/DRAMPower: Fix github tarball handling. 2022-11-26 09:11:46 +07:00
DRAMSim2 academic/DRAMSim2: Added (A cycle accurate DRAM simulator) 2022-10-15 10:47:28 +07:00
DRAMsim3 academic/DRAMsim3: Fix github tarball handling. 2022-11-05 21:15:16 +07:00
DRAMSys academic/DRAMSys: Fix github tarball handling. 2023-01-07 08:13:28 +07:00
ds9 academic/ds9: Updated for version 8.4.1. 2023-02-04 07:19:56 +07:00
dwave-cloud-client academic/dwave-cloud-client: Added (REST interface for D-Wave API) 2022-11-12 22:32:58 +07:00
dwave-greedy academic/dwave-greedy: Added (steepest descent solver for (BQM)) 2022-11-12 22:32:58 +07:00
dwave-hybrid academic/dwave-hybrid: Added (Hybrid Async Decomposition Sampler) 2022-11-12 22:32:59 +07:00
dwave-inspector academic/dwave-inspector: Added (visualize D-Wave structured solver) 2022-11-12 22:32:59 +07:00
dwave-neal academic/dwave-neal: Update DEP. 2023-04-29 09:30:05 +07:00
dwave-networkx academic/dwave-networkx: Added (D-Wave Systems network exploration) 2022-11-12 22:32:59 +07:00
dwave-ocean-sdk academic/dwave-ocean-sdk: Fix deps. 2022-11-19 10:08:09 +07:00
dwave-preprocessing academic/dwave-preprocessing: Added (binary quadratic models tools) 2022-11-12 22:32:59 +07:00
dwave-system academic/dwave-system: Added (basic API for D-Wave system) 2022-11-12 22:32:59 +07:00
dwave-tabu academic/dwave-tabu: Added (C/C++ implementation of MST2 for QUBO) 2022-11-12 22:32:59 +07:00
dwavebinarycsp academic/dwavebinarycsp: Added (contruct binary quadratic models) 2022-11-12 22:32:58 +07:00
easy_spice
ed-v6 Daves unified names 2023-05-06 08:28:36 +07:00
edsim51di
elk academic/elk: Fix SlackBuild permissions. 2022-11-12 22:33:05 +07:00
EMBASSY academic/EMBASSY: Update binaries location. 2022-07-29 22:21:46 +07:00
EMBOSS academic/EMBOSS: Update binaries location. 2022-07-29 22:20:39 +07:00
engauge
ent
eprover
equalx
ess
evopedia_qt
exonerate
extrema
fann
fastqc academic/fastqc: Remove .svn folders that were causing java-errors. 2023-04-23 09:40:07 +07:00
FCSalyzer
fet academic/fet: Updated for version 6.9.1. 2023-06-03 10:38:21 +07:00
fiji academic/fiji: Fix ARCH section. 2023-05-20 11:17:56 +07:00
finchtv academic/finchtv: Fix ARCH section. 2023-05-20 11:17:56 +07:00
fityk academic/fityk: Updated for version 1.3.2. 2023-04-08 09:16:26 +07:00
flann
flexbar
free42
FreeFem academic/FreeFem: Updated for version 4.12. 2023-01-07 08:03:29 +07:00
g3data
Gabedit academic/Gabedit: Install references. 2022-07-09 10:06:07 +07:00
gaiasky academic/gaiasky: Added (3D universe simulator for desktop and VR) 2023-04-08 09:16:28 +07:00
galculator
gaw3 academic/gaw3: Updated for version 20220315. 2023-04-01 09:14:08 +07:00
Gblocks academic/Gblocks: Fix ARCH section. 2023-05-20 11:17:57 +07:00
gchemutils
gcompris-qt academic/gcompris-qt: Updated for version 3.3. 2023-06-10 09:28:37 +07:00
geda-gaf
gelemental academic/gelemental: Updated for version 2.0.2. 2023-04-22 11:38:28 +07:00
gem5 academic/gem5: Added (open-source system-level & CPU simulator) 2022-10-29 10:28:33 +07:00
geneconv
genius
genometools academic/genometools: Updated for version 1.6.2. 2022-09-04 04:51:14 +01:00
genpak
GeoGebra
geomview academic/geomview: Updated for version 1.9.5. 2023-02-04 07:19:52 +07:00
gerbv
getdp academic/getdp: Updated for version 3.5.0. 2022-08-13 10:40:35 +07:00
getfem academic/getfem: Fix deps. 2022-11-12 22:33:19 +07:00
ggobi
ghemical
glpk
glvis academic/glvis: Added (finite element visualization tool). 2022-11-25 14:22:50 +07:00
gmsh academic/gmsh: Updated for version 4.11.1. 2023-01-14 08:50:10 +07:00
gnucap
gp2fasta
gpredict
grace academic/grace: Update download url. 2022-09-10 15:19:08 +07:00
gresistor academic/gresistor: Align with template. 2023-05-20 11:17:29 +07:00
gretl
gri
Gridcoin-Research academic/Gridcoin-Research: Updated for version 5.4.5.0 2023-04-29 18:11:56 +07:00
gromacs academic/gromacs: Minor template nitpick. 2023-02-18 10:07:13 +07:00
grpn
gspiceui academic/gspiceui: Updated for version 1.2.87. 2023-06-03 10:38:23 +07:00
gtkwave
gtypist academic/gtypist: Updated maintainer info. 2022-11-18 22:02:50 +07:00
gwyddion academic/gwyddion: Updated for version 2.62. 2022-11-12 22:32:56 +07:00
h5utils academic/h5utils: Updated for version 1.13.2. 2023-02-18 10:06:44 +07:00
harminv academic/harminv: Updated for version 1.4.2. 2023-02-18 10:06:44 +07:00
HMMER
hyphy academic/hyphy: Updated for version 2.5.50. 2023-05-13 19:27:12 +07:00
IGV academic/IGV: Updated for version 2.16.1. 2023-04-22 11:38:31 +07:00
io_lib academic/io_lib: Updated for version 1.15.0. 2023-05-13 19:27:04 +07:00
iqtree academic/iqtree: Updated for version 2.2.2.4. 2023-04-22 11:38:31 +07:00
irsim
isoelectric-point
iTest
itex2mml
ITK
jalview academic/jalview: Updated for version 2.11.2.5. 2023-04-21 09:30:11 +07:00
jellyfish_k-mer
jpicedt
jugglinglab
karma
klavaro academic/klavaro: Updated for version 3.14. 2022-12-31 09:14:42 +07:00
klu academic/klu: Align with template. 2023-05-20 11:17:29 +07:00
knime
kraken
Kst academic/Kst: Updated for version 20221025_5fdd819. 2023-02-22 12:09:51 +07:00
ktikz
kurso
labplot2 academic/labplot2: Updated for version 2.10.0. 2023-04-22 11:38:29 +07:00
ladr
laghos academic/laghos: Added (LAGrangian High-Order Solver) 2022-12-17 09:13:53 +07:00
lalnview
lapack95
lapacke academic/lapacke: Align with template. 2023-05-20 11:17:30 +07:00
latex2html
ldl academic/ldl: Align with template. 2023-05-20 11:17:30 +07:00
libghemical
link-grammar
locarna
lpsolve
mafft academic/mafft: Updated for version 7.520. 2023-05-13 19:27:12 +07:00
magic
mathics academic/mathics: Fix deps. 2022-11-12 22:33:12 +07:00
mathjax2 academic/mathjax2: Update maintainer's email 2023-06-04 23:13:23 +07:00
mathomatic
matio academic/matio: Updated for version 1.5.23. 2023-02-11 09:30:46 +07:00
maxima academic/maxima: Updated for version 5.46.0. 2022-10-08 09:12:41 +07:00
meep academic/meep: Updated for version 1.25.0. 2023-02-25 09:18:06 +07:00
megax academic/megax: Fix and mv ARCH sect. 2023-05-20 11:17:56 +07:00
meme-db-gomo
meme-db-motif academic/meme-db-motif: Updated for version 12.23. 2022-09-04 04:57:25 +01:00
meme-db-tgene
meme-suite academic/meme-suite: Updated for version 5.5.2. 2023-05-13 19:27:11 +07:00
mendeleydesktop academic/mendeleydesktop: Fix ARCH. 2023-06-03 10:38:30 +07:00
metalwalls academic/metalwalls: Added (Molecular modelling systems). 2022-10-19 01:02:36 +07:00
MetaPhlAn2 academic/MetaPhlAn2: Fix ARCH and deps. 2022-11-12 22:33:20 +07:00
metis academic/metis: Align with template. 2023-05-20 11:17:30 +07:00
mfem academic/mfem: Added (library for finite element methods). 2022-11-20 09:37:41 +07:00
minorminer academic/minorminer: Added (heuristic tool for minor embedding). 2022-11-12 10:48:01 +07:00
mkDSSP
molequeue
mpb
mrbayes
mumsa academic/mumsa: Added (A tool to assess MSA quality) 2022-09-25 13:59:42 +07:00
muscle
muscle5 academic/muscle5: Added (MUSCLE 5: Next-generation MUSCLE) 2022-10-15 10:47:28 +07:00
ncbi-blast academic/ncbi-blast: Fix and mv ARCH sect. 2023-05-20 11:17:56 +07:00
ncbi-blast+ academic/ncbi-blast+: Updated for version 2.13.0. 2022-09-04 14:40:01 +01:00
ncbi-rmblastn
nco academic/nco: Updated for version 5.1.6. 2023-06-03 10:19:29 +07:00
ncview
ngspice academic/ngspice: Remove openmpi from REQUIRES. 2023-05-06 08:28:22 +07:00
novocraft
NWChem academic/NWChem: Added (High-Performance Computational Chemistry) 2022-12-10 07:43:12 +07:00
octave academic/octave: Align with template. 2023-05-20 11:17:30 +07:00
openboard academic/openboard: Fix build with newer ffmpeg. 2022-10-13 10:19:15 +07:00
OpenFOAM academic/OpenFOAM: Updated for version 10. 2022-07-29 22:50:17 +07:00
OpenMM academic/OpenMM: Fix github tarball handling. 2022-11-05 21:15:16 +07:00
OpenVSP academic/OpenVSP: Moved from graphics. Updated for version 3.31.1. 2023-01-21 10:22:03 +07:00
pal2nal
paml academic/paml: Updated for version 4.10.6. 2023-04-22 11:38:27 +07:00
pamlX academic/pamlX: Fix paml docs dir. 2023-04-22 11:38:28 +07:00
papi
pari
parmetis
patsy academic/patsy: Fix deps. 2022-11-12 22:33:12 +07:00
pcalc
pcb
penaltymodel academic/penaltymodel: Added (penalty model solver). 2022-11-12 10:49:57 +07:00
perlprimer
petsc academic/petsc: Fix deps. 2022-11-12 22:33:16 +07:00
PhyML academic/PhyML: Updated for version 3.3.20220408. 2022-09-04 13:49:57 +01:00
pianobooster academic/pianobooster: Update email address. 2022-06-08 12:25:51 -04:00
plasmidomics
plus42 academic/plus42: Updated for version 1.0.19. 2023-05-20 11:17:08 +07:00
pomoxis academic/pomoxis: Added (bioinformatics tools for nanopore research) 2023-03-18 09:50:22 +07:00
prank-msa academic/prank-msa: Added (probabilistic multiple alignment program) 2022-09-08 22:18:25 +01:00
primer3
pspp academic/pspp: Updated for version 1.6.2. 2023-03-04 07:16:37 +07:00
pulseview
PyAMG academic/PyAMG: Fix deps. 2022-11-12 22:33:11 +07:00
pyCRAC academic/pyCRAC: Updated to version 1.5.2; crac_pipeline no longer included (see README) 2023-04-15 06:41:28 +07:00
pyfits academic/pyfits: Align with template. 2023-05-20 11:17:27 +07:00
pysam academic/pysam: Updated for version 0.21.0. 2023-04-15 07:15:38 +07:00
python2-kiwisolver academic/python2-kiwisolver: Align with template. 2023-05-20 11:17:41 +07:00
python2-scipy academic/python2-scipy: Align with template. 2023-05-20 11:17:41 +07:00
python3-ase academic/python3-ase: Added (Atomic Simulation Environment (ASE)) 2022-12-10 07:43:12 +07:00
python3-scipy academic/python3-scipy: Update maintainer's email 2023-06-04 23:13:23 +07:00
qalculate-gtk
qcl
qhull
qrupdate academic/qrupdate: Align with template. 2023-05-20 11:17:30 +07:00
qucs
qucs-s academic/qucs-s: Updated for version 1.1.0. 2023-06-10 08:28:36 +07:00
R academic/R: update 4.3.0 2023-04-22 10:01:16 +07:00
ramulator academic/ramulator: Fix github tarball handling. 2022-11-26 09:11:46 +07:00
RAxML
rbio academic/rbio: Align with template. 2023-05-20 11:17:27 +07:00
reduce-algebra
RepeatMasker
root academic/root: do not download and use gtest 2023-04-05 14:52:11 +07:00
rpy2 academic/rpy2: Updated for version 3.5.10. 2023-04-15 07:15:38 +07:00
sage
sage-bin
samtools academic/samtools: Updated for version 1.17. 2023-04-15 07:15:39 +07:00
samtools-legacy
scidavis academic/scidavis: Updated for version 2.9.0. 2022-06-18 09:09:57 +07:00
scilab
seaview academic/seaview: treerecs added to REQUIRES. 2023-04-22 11:38:31 +07:00
seqkit academic/seqkit: Fix ARCH sect. 2023-05-20 11:17:56 +07:00
SeqMonk academic/SeqMonk: Updated for version 1.48.1. 2022-08-06 20:16:13 +07:00
sequence-analysis
Shark
sigrok-cli
SimEng academic/SimEng: Fix github tarball handling. 2022-11-26 09:11:46 +07:00
siril
smath-studio academic/smath-studio: Updated for version 1.0.8348 2022-12-03 11:46:53 +07:00
snpEff academic/snpEff: Build cleanup. 2022-08-13 10:40:38 +07:00
solfege
spades academic/spades: Updated for version 3.15.5. 2023-04-21 09:30:46 +07:00
speedcrunch
spiceopus
spidey academic/spidey: Fix and mv ARCH sect. 2023-05-20 11:17:56 +07:00
spqr academic/spqr: Align with template. 2023-05-20 11:17:30 +07:00
squizz
staden academic/staden: A few enhancements. 2023-05-13 19:27:12 +07:00
STAR academic/STAR: ugraded to version 2.7.10b 2022-11-24 22:14:26 +07:00
stellarium academic/stellarium: Updated for version 23.1. 2023-05-06 08:28:22 +07:00
stellarsolver academic/stellarsolver: Added (Astrometric Plate Solver) 2022-08-20 10:06:38 +07:00
stringtie
SU2
suitesparse
suitesparseconfig academic/suitesparseconfig: Align with template. 2023-05-20 11:17:30 +07:00
sundials
sword
sword-data-kjv
t_coffee
tabix-legacy
tiemu academic/tiemu: New maintainer. 2023-02-25 09:18:10 +07:00
tilem
tilem2
tkgate
topdraw
tophat
treebest-ensembl
TreeGraph
treerecs academic/treerecs: Added (Treerecs: a tree reconciliation tool) 2023-04-22 11:38:30 +07:00
treeviewx
trfind
trimmomatic
tuxmath
tuxtype2
ucsc-blat academic/ucsc-blat: Fix and mv ARCH sect, http->https. 2023-05-20 11:17:56 +07:00
ugene academic/ugene: Updated for version 46.0. 2023-04-21 09:31:29 +07:00
umfpack academic/umfpack: Align with template. 2023-05-20 11:17:31 +07:00
units academic/units: Updated for version 2.22 2022-09-10 15:19:08 +07:00
vCAPS_coevolution academic/vCAPS_coevolution: Added (Coevolution Analysis) 2022-09-09 03:10:09 +01:00
vcftools
velocyto academic/velocyto: Use correct github URL. 2023-03-25 10:02:01 +07:00
verilator
verilog academic/verilog: Fix download url. 2022-11-05 12:56:05 +07:00
veusz academic/veusz: Fix deps. 2022-11-12 22:33:18 +07:00
ViennaRNA academic/ViennaRNA: Fix build. 2023-03-11 21:19:45 +07:00
voro++ academic/voro++: Added (A 3D Voronoi cell software library) 2022-10-15 10:47:38 +07:00
wehi-cellsymphony
wehi-deid
wehi-hackit
wehi-weasel
WEVOTE
wmcalc academic/wmcalc: Fix doinst.sh. 2022-12-31 09:14:48 +07:00
WolframEngine academic/WolframEngine: Updated for version 13.2.0. 2023-03-11 21:15:48 +07:00
WordNet
wxMaxima
x48
xcircuit academic/xcircuit: Updated for version 3.10.30. New maintainer. 2023-03-25 10:01:45 +07:00
xephem
xflr5
xfoil
xiphos academic/xiphos: Update DEP. 2023-02-25 08:54:00 +07:00
xoscope academic/xoscope: Align with template. 2023-05-20 11:17:31 +07:00
xsimd academic/xsimd: Update maintainer's email 2023-06-04 23:13:23 +07:00
yices2 academic/yices2: Added (Satisfiability modulo theories solver). 2022-11-05 12:46:15 +07:00
z3 academic/z3: Updated for version 4.11.2. 2022-10-08 09:12:54 +07:00
ZeGrapher
zotero academic/zotero: Updated for version 6.0.26. 2023-05-06 08:28:18 +07:00
zotero-gtk2 academic/zotero-gtk2: Added (Collect and share research sources) 2023-05-06 08:28:23 +07:00