diff --git a/build-fail-blacklist b/build-fail-blacklist
index 11417359a41b0..46f066e8fa4cf 100644
--- a/build-fail-blacklist
+++ b/build-fail-blacklist
@@ -12,14 +12,19 @@ recipes/last/638
 recipes/transcomb
 
 # compilation or other errors in bulk
+recipes/mirdeep2
+recipes/rapid
+recipes/mqc
+recipes/panx/1.6.0
+recipes/panx/1.5.0
+recipes/roprofile
+recipes/chanjo
 recipes/xxmotif
 recipes/phylip
 recipes/metasnv
 recipes/gqt
 recipes/diamond_add_taxonomy
 recipes/shapemapper
-recipes/biom-format
-recipes/circulator
 recipes/igdiscover
 recipes/rnftools
 recipes/tiptoft
@@ -59,26 +64,13 @@ recipes/htseq/0.6.1
 recipes/htseq/0.7.2
 recipes/htseq/0.9.1
 recipes/freebayes/1.1.0.46
-recipes/mothur/1.36.1
 recipes/blast/2.2.21
 recipes/blast-legacy/2.2.22
-recipes/fwdpp/0.5.3
-recipes/fwdpp/0.5.4
-recipes/java-jdk/7.0.91
 recipes/perl-extutils-makemaker/7.24
 recipes/tabix/0.2.5
 recipes/tabix/0.2.6
 recipes/cyvcf2/0.7.2
 recipes/rsem/1.2.21
-recipes/w4mclassfilter/0.98.0
-recipes/w4mclassfilter/0.98.1
-recipes/w4mclassfilter/0.98.2
-recipes/w4mclassfilter/0.98.3
-recipes/w4mclassfilter/0.98.6
-recipes/w4mclassfilter/0.98.7
-recipes/w4mclassfilter/0.98.8
-recipes/stringtie/1.0.3
-recipes/stringtie/1.0.4
 recipes/stringtie/1.2.2
 recipes/stringtie/1.2.4
 recipes/stringtie/1.3.0
@@ -114,12 +106,10 @@ recipes/megagta
 recipes/genometools-genometools/1.5.10-nocairo
 
 # Unknown issues
-recipes/openslide
 recipes/smina
 recipes/cmv
 recipes/fwdpp
 recipes/parafly
-recipes/rdflib-jsonld
 recipes/smashbenchmarking
 recipes/saffrontree
 recipes/slclust
@@ -194,9 +184,6 @@ recipes/talloc
 # Skipped: vnl from /opt/recipe defines build/skip for this configuration ({'c_compiler': 'toolchain_c'}).
 recipes/vnl
 
-# old libc++ missing
-recipes/searchgui/3.2.20
-
 # something wrong with the test
 recipes/remurna
 
@@ -256,9 +243,6 @@ recipes/imfusion/0.3.0
 recipes/imfusion/0.3.2
 recipes/poretools/0.5.1
 recipes/hubward
-recipes/pasta/1.7.8
-recipes/pasta/0.2
-recipes/nucleoatac/0.3.1
 recipes/phylotoast
 
 # git checkout problem
@@ -275,9 +259,6 @@ recipes/emperor
 # sed: can't read /opt/conda/conda-bld/idba_1530055808563/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehol/bin/aclocal: No such file or directory
 recipes/idba
 
-# socket.timeout: timed out
-recipes/infernal/1.0.2
-
 # PREFIX/lib is a directory
 recipes/proot
 
@@ -293,9 +274,6 @@ recipes/metavelvet
 recipes/meryl
 recipes/metavelvet-sl-pipeline
 
-# CMake Error: CMAKE_C_COMPILER not set, after EnableLanguage
-recipes/openbabel/2.3.2
-
 # Conflicting numpy and qiime
 recipes/koeken
 
@@ -332,10 +310,6 @@ recipes/guidescan
 recipes/relocate2/2.0.1
 recipes/relocate2
 
-# ModuleNotFoundError: No module named 'model'
-recipes/pyvcf/0.6.7
-recipes/pyvcf
-
 # /usr/bin/env: python -Es: No such file or directory
 recipes/pizzly
 
@@ -357,9 +331,6 @@ recipes/vcftools/0.1.11
 # broken pipe
 recipes/antarna
 
-# missing perl module
-recipes/snippy/3.0
-
 # hashFunction.c:94: Error: invalid instruction suffix for `push'
 recipes/soapdenovo2
 
@@ -367,7 +338,6 @@ recipes/soapdenovo2
 recipes/ant
 recipes/ngseqbasic
 recipes/footprint
-recipes/mirdeep2/2.0.0.8
 
 # missing bioc package
 recipes/customprodb
@@ -424,9 +394,6 @@ recipes/fastme
 # perl script could not be found
 recipes/rnaclust
 
-# [javac] Caused by: java.lang.ClassNotFoundException: com.sun.tools.javac.main.OptionName
-recipes/picard/1.97
-
 # Incompatible boost and bellmans-gapc
 recipes/rnashapes/3.3.0
 
@@ -481,9 +448,6 @@ recipes/gfinisher
 # gsl missing but specified
 recipes/gfold
 
-# build errors
-recipes/ghc/6.8.3
-
 # missing python dep
 recipes/hurry.filesize
 
@@ -602,7 +566,6 @@ recipes/r-phewas
 recipes/r-pore
 recipes/r-prestor
 recipes/r-qorts
-recipes/r-quorts
 recipes/r-rBLAST
 recipes/r-rubic
 recipes/r-scimpute
@@ -655,10 +618,7 @@ recipes/bioconductor-s4vectors/0.8.11
 recipes/bioconductor-birte
 recipes/bioconductor-dsimer
 recipes/bioconductor-flipflop
-recipes/bioconductor-gpumagic
 recipes/bioconductor-flowq
-recipes/bioconductor-procona
-recipes/bioconductor-pgpc
 recipes/bioconductor-appreci8r
 
 # stringify can't find libmysqlclient.18
@@ -743,3 +703,621 @@ recipes/bioconductor-rchemcpp
 recipes/bioconductor-gmapr
 recipes/bioconductor-flowtype
 recipes/bioconductor-rchyoptimyx
+
+# perl packages that should be moved to conda-forge
+recipes/perl-aceperl
+recipes/perl-acme-damn
+recipes/perl-algorithm-cluster
+recipes/perl-algorithm-dependency
+recipes/perl-algorithm-diff
+recipes/perl-algorithm-munkres
+recipes/perl-aliased
+recipes/perl-apache-test
+recipes/perl-appconfig
+recipes/perl-app-cpanminus
+recipes/perl-archive-extract
+recipes/perl-archive-tar
+recipes/perl-archive-tar-wrapper
+recipes/perl-archive-zip
+recipes/perl-array-compare
+recipes/perl-array-set
+recipes/perl-array-utils
+recipes/perl-attribute-handlers
+recipes/perl-authen-sasl-saslprep
+recipes/perl-autodie
+recipes/perl-autoloader
+recipes/perl-b
+recipes/perl-b-debug
+recipes/perl-b-hooks-endofscope
+recipes/perl-bignum
+recipes/perl-bit-vector
+recipes/perl-blib
+recipes/perl-bloom-faster
+recipes/perl-border-style
+recipes/perl-btlib
+recipes/perl-bundle-bioperl
+recipes/perl-business-isbn
+recipes/perl-business-isbn-data
+recipes/perl-cache-cache
+recipes/perl-cairo
+recipes/perl-canary-stability
+recipes/perl-capture-tiny
+recipes/perl-carp
+recipes/perl-carp-clan
+recipes/perl-cgi
+recipes/perl-cg-pipeline
+recipes/perl-class-accessor
+recipes/perl-class-data-inheritable
+recipes/perl-class-inspector
+recipes/perl-class-load
+recipes/perl-class-load-xs
+recipes/perl-class-methodmaker
+recipes/perl-class-method-modifiers
+recipes/perl-class-singleton
+recipes/perl-class-std
+recipes/perl-class-std-fast
+recipes/perl-class-xsaccessor
+recipes/perl-clone
+recipes/perl-clone-choose
+recipes/perl-clone-pp
+recipes/perl-color-theme
+recipes/perl-common-sense
+recipes/perl-compress-bgzf
+recipes/perl-compress-raw-bzip2
+recipes/perl-compress-raw-zlib
+recipes/perl-config-any
+recipes/perl-config-autoconf
+recipes/perl-config-general
+recipes/perl-config-simple
+recipes/perl-config-tiny
+recipes/perl-constant
+recipes/perl-const-fast
+recipes/perl-convert-binary-c
+recipes/perl-convert-binhex
+recipes/perl-cpan-meta
+recipes/perl-cpan-meta-check
+recipes/perl-cpan-meta-requirements
+recipes/perl-cpan-meta-validator
+recipes/perl-cpan-meta-yaml
+recipes/perl-cpan-shell
+recipes/perl-crypt-openssl-random
+recipes/perl-crypt-openssl-rsa
+recipes/perl-crypt-rc4
+recipes/perl-data-compare
+recipes/perl-data-dump
+recipes/perl-data-dumper
+recipes/perl-data-lock
+recipes/perl-data-match
+recipes/perl-data-munge
+recipes/perl-data-optlist
+recipes/perl-data-stag
+recipes/perl-data-utilities
+recipes/perl-data-uuid
+recipes/perl-data-visitor
+recipes/perl-data-walk
+recipes/perl-date-format
+recipes/perl-date-manip
+recipes/perl-datetime
+recipes/perl-datetime-format-strptime
+recipes/perl-datetime-locale
+recipes/perl-datetime-timezone
+recipes/perl-dbd-mysql
+recipes/perl-dbd-pg
+recipes/perl-dbd-sqlite
+recipes/perl-db-file
+recipes/perl-dbi
+recipes/perl-dbm-deep
+recipes/perl-devel-assert
+recipes/perl-devel-checkbin
+recipes/perl-devel-checkos
+recipes/perl-devel-cover
+recipes/perl-devel-cycle
+recipes/perl-devel-globaldestruction
+recipes/perl-devel-overloadinfo
+recipes/perl-devel-size
+recipes/perl-devel-stacktrace
+recipes/perl-devel-symdump
+recipes/perl-digest-crc32
+recipes/perl-digest-hmac
+recipes/perl-digest-md5
+recipes/perl-digest-md5-file
+recipes/perl-digest-perl-md5
+recipes/perl-digest-sha
+recipes/perl-digest-sha1
+recipes/perl-dist-checkconflicts
+recipes/perl-dumbbench
+recipes/perl-dynaloader
+recipes/perl-email-date-format
+recipes/perl-encode
+recipes/perl-encode-locale
+recipes/perl-env
+recipes/perl-env-path
+recipes/perl-error
+recipes/perl-escape-houdini
+recipes/perl-eval-closure
+recipes/perl-excel-writer-xlsx
+recipes/perl-exception-class
+recipes/perl-experimental
+recipes/perl-exporter
+recipes/perl-exporter-tidy
+recipes/perl-exporter-tiny
+recipes/perl-extutils-cbuilder
+recipes/perl-extutils-config
+recipes/perl-extutils-constant
+recipes/perl-extutils-cppguess
+recipes/perl-extutils-depends
+recipes/perl-extutils-helpers
+recipes/perl-extutils-installpaths
+recipes/perl-extutils-makemaker
+recipes/perl-extutils-manifest
+recipes/perl-extutils-parsexs
+recipes/perl-extutils-pkgconfig
+recipes/perl-fastx-reader
+recipes/perl-file-chdir
+recipes/perl-file-compare
+recipes/perl-file-copy-link
+recipes/perl-file-copy-recursive
+recipes/perl-file-copy-recursive-reduced
+recipes/perl-file-details
+recipes/perl-filedirutil
+recipes/perl-file-fetch
+recipes/perl-file-find
+recipes/perl-file-find-rule
+recipes/perl-file-grep
+recipes/perl-file-homedir
+recipes/perl-file-listing
+recipes/perl-file-next
+recipes/perl-file-path
+recipes/perl-file-pushd
+recipes/perl-file-readbackwards
+recipes/perl-file-remove
+recipes/perl-file-share
+recipes/perl-file-sharedir
+recipes/perl-file-sharedir-install
+recipes/perl-file-slurp
+recipes/perl-file-slurper
+recipes/perl-file-slurp-tiny
+recipes/perl-file-sort
+recipes/perl-file-spec
+recipes/perl-filesys-df
+recipes/perl-file-tee
+recipes/perl-file-temp
+recipes/perl-file-touch
+recipes/perl-file-util
+recipes/perl-file-which
+recipes/perl-filter-simple
+recipes/perl-findbin
+recipes/perl-findbin-libs
+recipes/perl-findbin-real
+recipes/perl-font-afm
+recipes/perl-font-ttf
+recipes/perl-forks
+recipes/perl-gd
+recipes/perl-gdgraph
+recipes/perl-gdgraph-histogram
+recipes/perl-gdtextutil
+recipes/perl-getopt-argvfile
+recipes/perl-getopt-long
+recipes/perl-getopt-long-descriptive
+recipes/perl-git-wrapper
+recipes/perl-git-wrapper-plus
+recipes/perl-go-perl
+recipes/perl-graph
+recipes/perl-graphics-colornames
+recipes/perl-graphics-colorobject
+recipes/perl-graph-readwrite
+recipes/perl-graphviz
+recipes/perl-hash-merge
+recipes/perl-hash-util-fieldhash-compat
+recipes/perl-heap
+recipes/perl-heap-simple
+recipes/perl-heap-simple-perl
+recipes/perl-heap-simple-xs
+recipes/perl-hook-lexwrap
+recipes/perl-hpc-runner-command
+recipes/perl-hpc-runner-command-plugin-logger-sqlite
+recipes/perl-html-element-extended
+recipes/perl-html-entities-numbered
+recipes/perl-html-form
+recipes/perl-html-formatter
+recipes/perl-html-parser
+recipes/perl-html-tableextract
+recipes/perl-html-tagset
+recipes/perl-html-template
+recipes/perl-html-tidy
+recipes/perl-html-tree
+recipes/perl-html-treebuilder-xpath
+recipes/perl-http-cookies
+recipes/perl-http-daemon
+recipes/perl-http-date
+recipes/perl-http-message
+recipes/perl-http-negotiate
+recipes/perl-http-server-simple
+recipes/perl-http-tiny
+recipes/perl-image-exiftool
+recipes/perl-image-info
+recipes/perl-image-size
+recipes/perl-importer
+recipes/perl-import-into
+recipes/perl-indirect
+recipes/perl-inline
+recipes/perl-inline-c
+recipes/perl-integer
+recipes/perl-io-all
+recipes/perl-io-compress
+recipes/perl-io-compress-deflate
+recipes/perl-io-gzip
+recipes/perl-io-handle
+recipes/perl-io-html
+recipes/perl-io-interactive
+recipes/perl-io-prompt
+recipes/perl-io-scalar
+recipes/perl-io-sessiondata
+recipes/perl-io-socket-inet6
+recipes/perl-io-socket-ssl
+recipes/perl-io-string
+recipes/perl-io-stringy
+recipes/perl-io-tty
+recipes/perl-io-uncompress-bunzip2
+recipes/perl-io-uncompress-gunzip
+recipes/perl-io-uncompress-rawinflate
+recipes/perl-io-zlib
+recipes/perl-ipc-cmd
+recipes/perl-ipc-run
+recipes/perl-ipc-run3
+recipes/perl-ipc-sharelite
+recipes/perl-ipc-system-simple
+recipes/perl-jcode
+recipes/perl-json
+recipes/perl-json-create
+recipes/perl-json-maybexs
+recipes/perl-json-parse
+recipes/perl-json-pp
+recipes/perl-json-xs
+recipes/perl-lib
+recipes/perl-libwww-perl
+recipes/perl-libxml-perl
+recipes/perl-list-compare
+recipes/perl-list-moreutils
+recipes/perl-list-moreutils-xs
+recipes/perl-list-someutils
+recipes/perl-list-uniq
+recipes/perl-locale
+recipes/perl-locale-maketext-simple
+recipes/perl-local-lib
+recipes/perl-log-any
+recipes/perl-logger-simple
+recipes/perl-log-log4perl
+recipes/perl-lwp-mediatypes
+recipes/perl-lwp-protocol-https
+recipes/perl-lwp-simple
+recipes/perl-lyve-set
+recipes/perl-mac-propertylist
+recipes/perl-mac-systemdirectory
+recipes/perl-mailtools
+recipes/perl-math-base-convert
+recipes/perl-math-bezier
+recipes/perl-math-bigint
+recipes/perl-math-bigrat
+recipes/perl-math-cdf
+recipes/perl-math-combinatorics
+recipes/perl-math-complex
+recipes/perl-math-derivative
+recipes/perl-math-random
+recipes/perl-math-random-mt-auto
+recipes/perl-math-round
+recipes/perl-math-spline
+recipes/perl-math-utils
+recipes/perl-math-vecstat
+recipes/perl-mce
+recipes/perl-mce-shared
+recipes/perl-memoize
+recipes/perl-mime-base64
+recipes/perl-mime-lite
+recipes/perl-mime-quotedprint
+recipes/perl-mime-tools
+recipes/perl-mime-types
+recipes/perl-mixin-linewise
+recipes/perl-mldbm
+recipes/perl-mldbm-sync
+recipes/perl-module-build
+recipes/perl-module-build-tiny
+recipes/perl-module-corelist
+recipes/perl-module-extract-use
+recipes/perl-module-fromperlver
+recipes/perl-module-implementation
+recipes/perl-module-list
+recipes/perl-module-load
+recipes/perl-module-load-conditional
+recipes/perl-module-loaded
+recipes/perl-module-metadata
+recipes/perl-module-pluggable
+recipes/perl-module-runtime
+recipes/perl-module-runtime-conflicts
+recipes/perl-module-scandeps
+recipes/perl-module-util
+recipes/perl-moo
+recipes/perl-moose
+recipes/perl-moosex-app
+recipes/perl-moosex-app-role-log4perl
+recipes/perl-moosex-clone
+recipes/perl-moosex-fileattribute
+recipes/perl-moosex-getopt
+recipes/perl-moosex-nonmoose
+recipes/perl-moosex-object-pluggable
+recipes/perl-moosex-role-parameterized
+recipes/perl-moosex-role-withoverloading
+recipes/perl-moosex-singleton
+recipes/perl-moosex-types
+recipes/perl-moosex-types-path-class
+recipes/perl-moosex-types-path-tiny
+recipes/perl-moosex-types-stringlike
+recipes/perl-mozilla-ca
+recipes/perl-mro-compat
+recipes/perl-ms
+recipes/perl-namespace-autoclean
+recipes/perl-namespace-clean
+recipes/perl-net-ftp
+recipes/perl-net-ftp-recursive
+recipes/perl-net-http
+recipes/perl-net-netrc
+recipes/perl-net-ssleay
+recipes/perl-ntlm
+recipes/perl-number-compare
+recipes/perl-number-format
+recipes/perl-number-misc
+recipes/perl-number-range
+recipes/perl-number-witherror
+recipes/perl-object-insideout
+recipes/perl-ole-storage_lite
+recipes/perl-onto-perl
+recipes/perl-ostype
+recipes/perl-package-deprecationmanager
+recipes/perl-package-stash
+recipes/perl-package-stash-xs
+recipes/perl-padwalker
+recipes/perl-par
+recipes/perl-parallel-forkmanager
+recipes/perl-parallel-iterator
+recipes/perl-parallel-loops
+recipes/perl-params-check
+recipes/perl-params-coerce
+recipes/perl-params-util
+recipes/perl-params-validate
+recipes/perl-params-validationcompiler
+recipes/perl-par-dist
+recipes/perl-parent
+recipes/perl-par-packer
+recipes/perl-parse-recdescent
+recipes/perl-parse-yapp
+recipes/perl-path-class
+recipes/perl-path-tiny
+recipes/perl-pathtools
+recipes/perl-pbkdf2-tiny
+recipes/perl-pcap
+recipes/perl-pdf-api2
+recipes/perl-pdf-table
+recipes/perl-pegex
+recipes/perl-perl4-corelibs
+recipes/perl-perlio
+recipes/perl-perlio-encoding
+recipes/perl-perlio-gzip
+recipes/perl-perlio-utf8_strict
+recipes/perl-perl-osnames
+recipes/perl-perl-ostype
+recipes/perl-perl-unsafe-signals
+recipes/perl-perl-version
+recipes/perl-pod-checker
+recipes/perl-pod-coverage
+recipes/perl-pod-coverage-trustpod
+recipes/perl-pod-elemental
+recipes/perl-pod-escapes
+recipes/perl-pod-parser
+recipes/perl-pod-plaintext
+recipes/perl-pod-simple
+recipes/perl-pod-simple-text
+recipes/perl-pod-usage
+recipes/perl-posix
+recipes/perl-postscript
+recipes/perl-ppi
+recipes/perl-prefork
+recipes/perl-probe-perl
+recipes/perl-proc-fork
+recipes/perl-readonly
+recipes/perl-regexp-common
+recipes/perl-return-multilevel
+recipes/perl-role-tiny
+recipes/perl-role-tiny-with
+recipes/perl-safe
+recipes/perl-scalar-list-utils
+recipes/perl-scalar-util-numeric
+recipes/perl-scope-guard
+recipes/perl-sereal
+recipes/perl-sereal-decoder
+recipes/perl-sereal-encoder
+recipes/perl-set-intervaltree
+recipes/perl-set-intspan
+recipes/perl-set-scalar
+recipes/perl-slurp
+recipes/perl-snap
+recipes/perl-soap-lite
+recipes/perl-socket
+recipes/perl-socket6
+recipes/perl-sort-naturally
+recipes/perl-sort-versions
+recipes/perl-specio
+recipes/perl-specio-exporter
+recipes/perl-spiffy
+recipes/perl-spreadsheet-parseexcel
+recipes/perl-spreadsheet-writeexcel
+recipes/perl-sql-statement
+recipes/perl-statistics-basic
+recipes/perl-statistics-caseresampling
+recipes/perl-statistics-descriptive
+recipes/perl-statistics-distributions
+recipes/perl-statistics-frequency
+recipes/perl-statistics-lite
+recipes/perl-statistics-r
+recipes/perl-statistics-ttest
+recipes/perl-storable
+recipes/perl-string-approx
+recipes/perl-string-diff
+recipes/perl-string-escape
+recipes/perl-string-random
+recipes/perl-string-rewriteprefix
+recipes/perl-string-truncate
+recipes/perl-string-util
+recipes/perl-sub-attribute
+recipes/perl-sub-exporter
+recipes/perl-sub-exporter-formethods
+recipes/perl-sub-exporter-progressive
+recipes/perl-sub-identify
+recipes/perl-sub-info
+recipes/perl-sub-install
+recipes/perl-sub-name
+recipes/perl-sub-quote
+recipes/perl-sub-uplevel
+recipes/perl-super
+recipes/perl-svg
+recipes/perl-svg-graph
+recipes/perl-symbol
+recipes/perl-symbol-util
+recipes/perl-sys-info
+recipes/perl-sys-info-base
+recipes/perl-sys-info-driver-linux
+recipes/perl-sys-info-driver-osx
+recipes/perl-sys-sigaction
+recipes/perl-tap-harness-env
+recipes/perl-task-weaken
+recipes/perl-template-toolkit
+recipes/perl-term-app-roles
+recipes/perl-term-detect-software
+recipes/perl-term-encoding
+recipes/perl-term-progressbar
+recipes/perl-termreadkey
+recipes/perl-term-table
+recipes/perl-test
+recipes/perl-test2
+recipes/perl-test2-suite
+recipes/perl-test-base
+recipes/perl-test-builder-tester
+recipes/perl-test-classapi
+recipes/perl-test-class-moose
+recipes/perl-test-cleannamespaces
+recipes/perl-test-cpan-meta
+recipes/perl-test-deep
+recipes/perl-test-differences
+recipes/perl-test-eol
+recipes/perl-test-exception
+recipes/perl-test-exec
+recipes/perl-test-fatal
+recipes/perl-test-file
+recipes/perl-test-file-contents
+recipes/perl-test-files
+recipes/perl-test-fork
+recipes/perl-test-harness
+recipes/perl-test-inter
+recipes/perl-test-leaktrace
+recipes/perl-test-lectrotest
+recipes/perl-test-longstring
+recipes/perl-test-memory-cycle
+recipes/perl-test-mockmodule
+recipes/perl-test-most
+recipes/perl-test-needs
+recipes/perl-test-notabs
+recipes/perl-test-nowarnings
+recipes/perl-test-object
+recipes/perl-test-output
+recipes/perl-test-pod
+recipes/perl-test-pod-coverage
+recipes/perl-test-prereq
+recipes/perl-test-requires
+recipes/perl-test-requiresinternet
+recipes/perl-test-script
+recipes/perl-test-simple
+recipes/perl-test-subcalls
+recipes/perl-test-sys-info
+recipes/perl-test-toolbox
+recipes/perl-test-trap
+recipes/perl-test-unit-lite
+recipes/perl-test-utf8
+recipes/perl-test-warn
+recipes/perl-test-warnings
+recipes/perl-test-without-module
+recipes/perl-test-xml
+recipes/perl-test-yaml
+recipes/perl-text-abbrev
+recipes/perl-text-ansitable
+recipes/perl-text-asciitable
+recipes/perl-text-balanced
+recipes/perl-text-csv
+recipes/perl-text-diff
+recipes/perl-text-format
+recipes/perl-text-glob
+recipes/perl-text-levenshtein
+recipes/perl-text-levenshteinxs
+recipes/perl-text-nsp
+recipes/perl-text-parsewords
+recipes/perl-text-tabs
+recipes/perl-text-tabs-wrap
+recipes/perl-text-template
+recipes/perl-text-template-simple
+recipes/perl-text-wrap
+recipes/perl-threaded
+recipes/perl-tie-cache
+recipes/perl-tie-cacher
+recipes/perl-tie-hash
+recipes/perl-tie-hash-indexed
+recipes/perl-tie-ixhash
+recipes/perl-tie-log4perl
+recipes/perl-tie-refhash
+recipes/perl-tie-refhash-weak
+recipes/perl-tie-toobject
+recipes/perl-timedate
+recipes/perl-time-hires
+recipes/perl-time-local
+recipes/perl-time-piece
+recipes/perl-tree-dag_node
+recipes/perl-try-tiny
+recipes/perl-try-tiny-retry
+recipes/perl-types-serialiser
+recipes/perl-type-tiny
+recipes/perl-unicode-map
+recipes/perl-unicode-normalize
+recipes/perl-unicode-stringprep
+recipes/perl-unicode-utf8
+recipes/perl-uri
+recipes/perl-variable-magic
+recipes/perl-vars
+recipes/perl-vcftools-vcf
+recipes/perl-velvetoptimiser
+recipes/perl-version
+recipes/perl-version-next
+recipes/perl-want
+recipes/perl-warnings-register
+recipes/perl-www-mechanize
+recipes/perl-www-robotrules
+recipes/perl-xml-dom
+recipes/perl-xml-dom-xpath
+recipes/perl-xml-entities
+recipes/perl-xml-filter-buffertext
+recipes/perl-xml-libxml
+recipes/perl-xml-libxslt
+recipes/perl-xml-namespacesupport
+recipes/perl-xml-parser
+recipes/perl-xml-parser-lite
+recipes/perl-xml-regexp
+recipes/perl-xml-sax
+recipes/perl-xml-sax-base
+recipes/perl-xml-sax-expat
+recipes/perl-xml-sax-writer
+recipes/perl-xml-semanticdiff
+recipes/perl-xml-simple
+recipes/perl-xml-twig
+recipes/perl-xml-writer
+recipes/perl-xml-xpath
+recipes/perl-xml-xpathengine
+recipes/perl-xsloader
+recipes/perl-yaml
+recipes/perl-yaml-libyaml
+recipes/perl-yaml-tiny
diff --git a/recipes/a5-miseq/build.sh b/recipes/a5-miseq/build.sh
index dd811996f74c9..05421a70cd9e7 100644
--- a/recipes/a5-miseq/build.sh
+++ b/recipes/a5-miseq/build.sh
@@ -6,4 +6,5 @@ mkdir -p $A5_MISEQ_HOME
 cp -R $SRC_DIR/* $A5_MISEQ_HOME/
 
 # Create symbolic links for a5_miseq's launch script
-ln -s $A5_MISEQ_HOME/bin/a5_pipeline.pl $BINARY_HOME/ 
\ No newline at end of file
+mkdir -p $BINARY_HOME
+ln -s $A5_MISEQ_HOME/bin/a5_pipeline.pl $BINARY_HOME/ 
diff --git a/recipes/assemblerflow/meta.yaml b/recipes/assemblerflow/meta.yaml
index 09d9934ccc341..5f8f076ec8c95 100644
--- a/recipes/assemblerflow/meta.yaml
+++ b/recipes/assemblerflow/meta.yaml
@@ -6,7 +6,7 @@ package:
   version: '{{ version }}'
 
 source:
-  url: https://pypi.io/packages/source/{{ name[0] }}/{{ name }}/{{ name }}-{{ version }}.{{ file_ext }}
+  url: https://pypi.io/packages/source/{{ name[0] }}/{{ name }}/{{ name }}-{{ version }}.tar.gz
   sha256: b0390727602e90dad1c3afa8dd408e5c30471a0f6d35b323989e9df4e8aa70fb
 
 build:
diff --git a/recipes/bs-seeker2/meta.yaml b/recipes/bs-seeker2/meta.yaml
index ee94b668bea4e..b0bab72c74a19 100644
--- a/recipes/bs-seeker2/meta.yaml
+++ b/recipes/bs-seeker2/meta.yaml
@@ -1,14 +1,16 @@
+{% set version = "2.1.0" %}
+
 package:
   name: bs-seeker2
-  version: "2.1.0"
+  version: {{ version }}
 
 build:
   noarch: generic
   number: 1
 
 source:
-  url: http://pellegrini.mcdb.ucla.edu/BS_Seeker2/BSseeker2_v2.1.0.tar.bz
-  md5: 2f3cb74a75453140f20e396ee68402bf
+  url: https://github.com/BSSeeker/BSseeker2/archive/v{{ version }}.tar.gz
+  sha256: 9eaeba3e15db18aa69c2466d4915dbdc8e99853b63dc17119501367f4bfd3996
 
 requirements:
   run:
diff --git a/recipes/bwise/build.sh b/recipes/bwise/build.sh
index 26b037dff4c35..7c65b5ac664d7 100644
--- a/recipes/bwise/build.sh
+++ b/recipes/bwise/build.sh
@@ -1,14 +1,13 @@
 #!/bin/bash
 
-cd src;
-make;
+cd src
+make CC=${CXX} CFLAGS="$CXXFLAGS -fopenmp -L${PREFIX}/lib -lz" LDFLAGS="-L${PREFIX}/lib -flto -fopenmp -lz"
 
-
-mkdir -p $PREFIX/bin;
-cp src/path_counter Bwise_path_counter;
-cp src/path_to_kmer Bwise_path_to_kmer;
-cp src/maximal_sr Bwise_maximal_sr;
-cp src/K2000/K2000.py Bwise_K2000.py;
-cp src/K2000/K2000_msr_to_gfa.py Bwise_K2000_msr_to_gfa.py;
-cp src/K2000/K2000_gfa_to_fasta.py Bwise_K2000_gfa_to_fasta.py;
-cp src/Bwise_conda $PREFIX/bin/bwise;
+mkdir -p $PREFIX/bin
+cp path_counter Bwise_path_counter
+cp path_to_kmer Bwise_path_to_kmer
+cp maximal_sr Bwise_maximal_sr
+cp K2000/K2000.py Bwise_K2000.py
+cp K2000/K2000_msr_to_gfa.py Bwise_K2000_msr_to_gfa.py
+cp K2000/K2000_gfa_to_fasta.py Bwise_K2000_gfa_to_fasta.py
+cp Bwise_conda $PREFIX/bin/bwise
diff --git a/recipes/bwise/meta.yaml b/recipes/bwise/meta.yaml
index a0b329eb7c558..d54945af443ac 100644
--- a/recipes/bwise/meta.yaml
+++ b/recipes/bwise/meta.yaml
@@ -17,16 +17,18 @@ requirements:
   build:
     - {{ compiler('c') }}
     - {{ compiler('cxx') }}
-
+  host:
+    - zlib
   run:
     - python >=3
     - bgreat
     - bcalm
     - btrim
+    - zlib
 
 test:
   commands:
-    - bwise
+    - bwise --help
 
 about:
   home: https://github.com/Malfoy/BWISE
diff --git a/recipes/clearcut/build.sh b/recipes/clearcut/build.sh
index 8356df8aeb1f3..bbcf757bde759 100644
--- a/recipes/clearcut/build.sh
+++ b/recipes/clearcut/build.sh
@@ -1,4 +1,4 @@
-mkdir -pv ${PREFIX}/bin
+mkdir -p ${PREFIX}/bin
 cd clearcut
 make 
 cp clearcut ${PREFIX}/bin
diff --git a/recipes/clearcut/meta.yaml b/recipes/clearcut/meta.yaml
index 648df4c9f99fe..e9dae066d0581 100644
--- a/recipes/clearcut/meta.yaml
+++ b/recipes/clearcut/meta.yaml
@@ -8,6 +8,7 @@ source:
 
 build:
   number: 1
+  skip: True  # [osx]
 
 requirements:
   build:
diff --git a/recipes/commet/build.sh b/recipes/commet/build.sh
index 948712c0c4536..c15d19ebac070 100644
--- a/recipes/commet/build.sh
+++ b/recipes/commet/build.sh
@@ -3,7 +3,7 @@
 mkdir -p ${PREFIX}/bin
 
 # installation
-make
+make CC=$CXX CFLAGS="$CXXFLAGS -Iinclude -L${PREFIX}/lib"
 
 # copy binaries and scripts
 cp Commet.py ${PREFIX}/bin
diff --git a/recipes/commet/meta.yaml b/recipes/commet/meta.yaml
index b419459d00f5d..92335bf6bcf3a 100644
--- a/recipes/commet/meta.yaml
+++ b/recipes/commet/meta.yaml
@@ -17,10 +17,13 @@ build:
 requirements:
   build:
     - {{ compiler('c') }}
+    - {{ compiler('cxx') }}
     - {{ compiler('fortran') }}
   host:
     - r-base
+    - zlib
   run:
+    - zlib
     - r-base
     - r-gplots
     - python
diff --git a/recipes/fusion-inspector/meta.yaml b/recipes/fusion-inspector/meta.yaml
index d524e76e4b460..9413ebc3d0704 100644
--- a/recipes/fusion-inspector/meta.yaml
+++ b/recipes/fusion-inspector/meta.yaml
@@ -1,5 +1,6 @@
 {% set name = "fusion-inspector" %}
 {% set version = "1.3.1" %}
+{% set build = "1" %}
 
 package:
   name: {{ name }}
@@ -11,7 +12,7 @@ source:
 
 build:
   noarch: generic
-  number: 1
+  number: {{ build }}
   # The reason for skipping osx is that trinity >=2.4 is not available in the osx channel
   # The python code in FusionInspector runs on python 2.7.
 
diff --git a/recipes/lsc/meta.yaml b/recipes/lsc/meta.yaml
index 67f84d81b52d4..d198c1b57f81b 100644
--- a/recipes/lsc/meta.yaml
+++ b/recipes/lsc/meta.yaml
@@ -3,7 +3,7 @@ package:
   version: "2.0"
 
 source:
-  url: https://www.healthcare.uiowa.edu/labs/au/LSC/files/LSC-2.0.tar.gz
+  url: http://augroup.org/LSC/files/LSC-2.0.tar.gz
   md5: 10e0e85f74a7975cd46ef4ea43ab7c5d
   patches:
     - install_paths.patch
diff --git a/recipes/mirdeep2/build.sh b/recipes/mirdeep2/build.sh
index 7ddde069b38ba..b318916d0bfac 100644
--- a/recipes/mirdeep2/build.sh
+++ b/recipes/mirdeep2/build.sh
@@ -1,4 +1,5 @@
 #!/bin/bash
+mkdir -p $PREFIX/bin
 cp src/* $PREFIX/bin
 
 cp Rfam_for_miRDeep.fa $PREFIX/bin
diff --git a/recipes/mirdeep2/meta.yaml b/recipes/mirdeep2/meta.yaml
index b9650a6b1b05e..5f3aef2c8cd4e 100644
--- a/recipes/mirdeep2/meta.yaml
+++ b/recipes/mirdeep2/meta.yaml
@@ -1,10 +1,11 @@
+#The actual version is x.y.z in 2.x.y.z
 package:
   name: mirdeep2
   version: '2.0.0.8'
 
 source:
-  url: https://www.mdc-berlin.de/45995549/en/research/research_teams/systems_biology_of_gene_regulatory_elements/projects/miRDeep/mirdeep2_0_0_8.zip
-  md5: a707f7d7ad4a2975fb8b2e78c5bcf483
+  url: https://github.com/rajewsky-lab/mirdeep2/archive/v0.0.8.tar.gz
+  sha256: 62762e99d4b095a0fd822e964d213729236ffc53c425121b6835c2d76e84a072
   patches:
     - mirdeep2.patch
 
diff --git a/recipes/mqc/build.sh b/recipes/mqc/build.sh
index 61846b6e25fa5..75e524b40fddd 100644
--- a/recipes/mqc/build.sh
+++ b/recipes/mqc/build.sh
@@ -1,8 +1,8 @@
 #! /bin/bash
 
+mkdir -p $PREFIX/bin/mqc_tools
 cp mQC.pl $PREFIX/bin
 chmod +x $PREFIX/bin/mQC.pl
-mkdir $PREFIX/bin/mqc_tools
 cp mqc_tools/*.py $PREFIX/bin/mqc_tools
 chmod +x $PREFIX/bin/mqc_tools/*.py
 cp mqc_tools/*.R $PREFIX/bin/mqc_tools
diff --git a/recipes/msms/meta.yaml b/recipes/msms/meta.yaml
index ebd1383d19981..624b4d7be48db 100644
--- a/recipes/msms/meta.yaml
+++ b/recipes/msms/meta.yaml
@@ -8,12 +8,12 @@ package:
 source:
   - url: {{ url_base }}/REL{{ version }}/msms_i86_64Linux2_{{ version }}.tar.gz  # [linux]
     md5: 650d8c6fd49d9ce291f30ed530d5f313  # [linux]
-    patches:
+    patches:  # [linux]
       - pdb_to_xyzr.patch  # [linux]
       - pdb_to_xyzrn.patch  # [linux]
   - url: {{ url_base }}/REL{{ version }}/msms_MacOSX_{{ version }}.tar.gz      # [osx]
     md5: 36bd8447908d12a8703f458564cbe74b  # [osx]
-    patches:
+    patches:  # [osx]
       - pdb_to_xyzr.patch  # [osx]
       - pdb_to_xyzrn.patch  # [osx]
 
diff --git a/recipes/novoalign/meta.yaml b/recipes/novoalign/meta.yaml
index be15b53f9ca6e..942bf881f7338 100644
--- a/recipes/novoalign/meta.yaml
+++ b/recipes/novoalign/meta.yaml
@@ -11,11 +11,11 @@ package:
 source:
   - url: http://www.novocraft.com/bioconda/novocraftV{{ version }}.Linux2.6.32.tar.gz  # [linux]
     sha256: {{ sha256_linux }}  # [linux]
-    patches:
+    patches:  # [linux]
       - 0001-patches-for-compiling-novo2maq.patch  # [linux]
   - url: http://www.novocraft.com/bioconda/novocraftV{{ version }}.MacOSX.tar.gz  # [osx]
     sha256: {{ sha256_osx }}  # [osx]
-    patches:
+    patches: # [osx]
       - 0001-patches-for-compiling-novo2maq.patch  # [osx]
 
 build:
diff --git a/recipes/probamconvert/build.sh b/recipes/probamconvert/build.sh
index 18f437d349950..a008f5fe635eb 100644
--- a/recipes/probamconvert/build.sh
+++ b/recipes/probamconvert/build.sh
@@ -1,3 +1,4 @@
 #!/bin/bash
 
+mkdir -p ${PREFIX}/bin
 cp python/*.py $PREFIX/bin/
diff --git a/recipes/r-quorts/build.sh b/recipes/r-quorts/build.sh
deleted file mode 100644
index 506aa0793f132..0000000000000
--- a/recipes/r-quorts/build.sh
+++ /dev/null
@@ -1,4 +0,0 @@
-  mv DESCRIPTION DESCRIPTION.old
-  grep -v '^Priority: ' DESCRIPTION.old > DESCRIPTION
-
-  $R CMD INSTALL --build .
diff --git a/recipes/r-quorts/meta.yaml b/recipes/r-quorts/meta.yaml
deleted file mode 100644
index 8eb1fa6001fed..0000000000000
--- a/recipes/r-quorts/meta.yaml
+++ /dev/null
@@ -1,44 +0,0 @@
-{% set name = "r-quorts" %}
-{% set version = "1.3.0" %}
-
-package:
-  name: {{ name|lower }}
-  version: {{ version }}
-
-source:
-  url: https://github.com/hartleys/QoRTs/releases/download/1.3.0/QoRTs_LATEST.tar.gz
-  md5: 7a61928954ed55ebb0715f1e3a60593e
-
-build:
-  number: 1
-
-  rpaths:
-    - lib/R/lib/
-    - lib/
-
-requirements:
-  host:
-    - r-base >=3.0.2
-  run:
-    - r-base >=3.0.2
-
-test:
-  commands:
-    - $R -e "library('QoRTs')"
-
-about:
-  home: https://github.com/hartleys/QoRTs
-  license: Public Domain
-  summary: 'The QoRTs software package is a fast, efficient, and portable multifunction toolkit designed to assist in the analysis, quality control, and data management of RNA-Seq datasets.'
-
-extra:
-  notes: |
-    This package is a requirement of the main QoRTs package; "qorts".
-  recipe-maintainers:
-    - MathiasHaudgaard
-    - FrodePedersen
-    - ArneKr
-    - johanneskoester
-    - bgruening
-    - daler
-    - jdblischak
diff --git a/recipes/rapid/v0.7/build.sh b/recipes/rapid/v0.7/build.sh
deleted file mode 100644
index b67b5574d1924..0000000000000
--- a/recipes/rapid/v0.7/build.sh
+++ /dev/null
@@ -1,7 +0,0 @@
-#!/bin/bash
-
-BIN=$PREFIX/bin
-mkdir -p $BIN
-cp bin/* $BIN/
-rapid=$PREFIX/bin
-chmod 755 $rapid/*
diff --git a/recipes/rapid/v0.7/meta.yaml b/recipes/rapid/v0.7/meta.yaml
deleted file mode 100644
index 414dbfdaa2ed0..0000000000000
--- a/recipes/rapid/v0.7/meta.yaml
+++ /dev/null
@@ -1,56 +0,0 @@
-{% set version = "0.7" %}
-
-package:
-  name: rapid
-  version: {{ version }}
-
-source:
-  url: https://github.com/SchulzLab/RAPID/archive/v{{ version }}.tar.gz
-  sha256: 922df6a7dbcd04d72121408e06a491c3946d7fc38a4c980789b311a565b1c59f
-build:
-  noarch: generic
-  number: 0
-
-requirements:
-  build:
-    - r-base >=3.4.1
-    - r-gplots ==3.0.1
-    - r-ggplot2 ==2.2.1
-    - r-rcolorbrewer >=1.1
-    - r-scales ==0.5.0
-    - r-knitr ==1.20
-    - r-rmarkdown >=1.3
-    - r-reshape2 >=1.4
-    - bioconductor-deseq2 >=1.18
-    - bowtie2 >=2.2.5
-    - bedtools ==2.23.0
-    - samtools >=0.1.19
-    - perl
-    - pandoc ==1.17.2
-  run:
-    - r-base >=3.4.1
-    - r-gplots ==3.0.1
-    - r-ggplot2 ==2.2.1
-    - r-rcolorbrewer >=1.1
-    - r-scales ==0.5.0
-    - r-knitr ==1.20
-    - r-rmarkdown >=1.3
-    - r-reshape2 >=1.4
-    - bioconductor-deseq2 >=1.18
-    - bowtie2 >=2.2.5
-    - bedtools ==2.23.0
-    - samtools >=0.1.19
-    - perl
-    - pandoc ==1.17.2
-test:
-  commands:
-    - rapidStats.sh --help
-    - samtools --version
-    - bedtools --version
-    - bowtie2 --version
-    - R --version
-    - perl --version
-about:
-  home: https://github.com/SchulzLab/RAPID
-  license: GPL2
-  summary: "Read Alignment, Analysis, and Differential Pipeline (RAPID) is a set of tools for the alignment, and analysis of genomic regions with small RNA clusters derived from small RNA sequencing data."
diff --git a/recipes/s3gof3r/meta.yaml b/recipes/s3gof3r/meta.yaml
index 76525b2c436ca..f19e2aca010cd 100644
--- a/recipes/s3gof3r/meta.yaml
+++ b/recipes/s3gof3r/meta.yaml
@@ -4,9 +4,9 @@ package:
 
 source:
   - url: https://github.com/rlmcpherson/s3gof3r/releases/download/v0.5.0/gof3r_0.5.0_linux_amd64.tar.gz # [linux]
-    sha256: d88f199d1580d8c8cac26ba39e15dc6e2126d20e56c3894bd37a226e8b3e665c
+    sha256: d88f199d1580d8c8cac26ba39e15dc6e2126d20e56c3894bd37a226e8b3e665c  # [linux]
   - url: https://github.com/rlmcpherson/s3gof3r/releases/download/v0.5.0/gof3r_0.5.0_darwin_amd64.zip # [osx]
-    sha256: 85ace61bd58cf57034e748af22b8a3c9ca82ed194da3a4c1c646989d78ee2947
+    sha256: 85ace61bd58cf57034e748af22b8a3c9ca82ed194da3a4c1c646989d78ee2947  # [osx]
 
 build:
   number: 1
diff --git a/recipes/seqprep/1.1/build.sh b/recipes/seqprep/1.1/build.sh
index f93cbd38c0860..47700485ccc3f 100644
--- a/recipes/seqprep/1.1/build.sh
+++ b/recipes/seqprep/1.1/build.sh
@@ -1,3 +1,3 @@
 mkdir -p ${PREFIX}/bin
-make
+make CC=$CC CFLAGS="$CFLAGS" LDFLAGS="$LDFLAGS -lz -lm"
 cp SeqPrep ${PREFIX}/bin
diff --git a/recipes/spades/3.10.1/meta.yaml b/recipes/spades/3.10.1/meta.yaml
index 80c69c367462b..6c9b4ff39cf64 100644
--- a/recipes/spades/3.10.1/meta.yaml
+++ b/recipes/spades/3.10.1/meta.yaml
@@ -17,7 +17,7 @@ requirements:
 
 test:
   commands:
-    - spades.py --test
+    - spades.py --test && rm -rf spades_test
 
 about:
   home: http://bioinf.spbau.ru/en/spades
diff --git a/recipes/spades/3.9.0/meta.yaml b/recipes/spades/3.9.0/meta.yaml
index 6448fb293e8f4..e06fe88459095 100644
--- a/recipes/spades/3.9.0/meta.yaml
+++ b/recipes/spades/3.9.0/meta.yaml
@@ -9,6 +9,7 @@ source:
     md5: 9e4d280fefe67589c028170fcb6749b3                                      # [osx]
 
 build:
+  skip: True  # [osx]
   number: 3
 
 requirements:
diff --git a/recipes/virema/build.sh b/recipes/virema/build.sh
index 582e1242911da..7bb071e0cfbac 100644
--- a/recipes/virema/build.sh
+++ b/recipes/virema/build.sh
@@ -1,4 +1,6 @@
 #!/bin/bash
 
+mkdir -p ${PREFIX}/bin
+head -n 2 *.py
 cp *.py $PREFIX/bin
 chmod +x $PREFIX/bin/*
diff --git a/recipes/virema/path.patch b/recipes/virema/path.patch
index ec521b217e0ed..46a2e0d8ef7ec 100644
--- a/recipes/virema/path.patch
+++ b/recipes/virema/path.patch
@@ -1,14 +1,14 @@
---- ViReMa_0.6/ViReMa.py	2014-06-25 12:43:38.000000000 +0000
-+++ ViReMa_0.6/ViReMa.py.new	2017-09-14 16:09:13.112629345 +0000
+--- ViReMa.py	2014-06-25 12:43:38.000000000 +0000
++++ ViReMa.py	2017-09-14 16:09:13.112629345 +0000
 @@ -1,3 +1,4 @@
-+#!/usr/bin/env python
++#!/usr/bin/env python
  ##      Copyright (c) 2013-2014 Andrew Laurence Routh
  ##      
  ##      Permission is hereby granted, free of charge, to any person obtaining a copy
---- ViReMa_0.6/Compiler_Module.py	2014-06-25 13:36:30.000000000 +0000
-+++ ViReMa_0.6/Compiler_Module.py.new	2017-09-14 16:09:27.678753883 +0000
+--- Compiler_Module.py	2014-06-25 13:36:30.000000000 +0000
++++ Compiler_Module.py	2017-09-14 16:09:27.678753883 +0000
 @@ -1,3 +1,4 @@
-+#!/usr/bin/env python
++#!/usr/bin/env python
  ##      Copyright (c) 2013-2014 Andrew Laurence Routh
  ##      
  ##      Permission is hereby granted, free of charge, to any person obtaining a copy