From d2c58823b2c338a20ec0e9f662e80a8de4f385f9 Mon Sep 17 00:00:00 2001 From: LunaJang Date: Wed, 4 Feb 2026 19:06:56 +0900 Subject: [PATCH 1/3] add 'extractframes' parameters in EasySearch.cpp for --translation-mode --- src/workflow/EasySearch.cpp | 3 +++ 1 file changed, 3 insertions(+) diff --git a/src/workflow/EasySearch.cpp b/src/workflow/EasySearch.cpp index 6788670c8..0c930e073 100644 --- a/src/workflow/EasySearch.cpp +++ b/src/workflow/EasySearch.cpp @@ -42,6 +42,9 @@ int doeasysearch(int argc, const char **argv, const Command &command, bool linse for (size_t i = 0; i < par.extractorfs.size(); i++){ par.extractorfs[i]->addCategory(MMseqsParameter::COMMAND_EXPERT); } + for (size_t i = 0; i < par.extractframes.size(); i++){ + par.extractframes[i]->addCategory(MMseqsParameter::COMMAND_EXPERT); + } for (size_t i = 0; i < par.splitsequence.size(); i++) { par.splitsequence[i]->addCategory(MMseqsParameter::COMMAND_EXPERT); } From a8b9db47641619d065307197074f5a235ea8170a Mon Sep 17 00:00:00 2001 From: LunaJang Date: Wed, 4 Feb 2026 19:07:22 +0900 Subject: [PATCH 2/3] Revert "Fix dbcan url" This reverts commit 73e15d1e4d870c5e0019afd27c1bdfe969f23c35. --- data/workflow/databases.sh | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/data/workflow/databases.sh b/data/workflow/databases.sh index d932ac91d..9e9a0edac 100644 --- a/data/workflow/databases.sh +++ b/data/workflow/databases.sh @@ -265,7 +265,7 @@ case "${SELECTION}" in ;; "dbCAN2") if notExists "${TMP_PATH}/download.done"; then - downloadFile "http://dbcan-hcc.unl.edu/download/dbCAN-fam-aln-V14.tar.gz" "${TMP_PATH}/msa.tar.gz" + downloadFile "https://dbcan-hcc.unl.edu/download/dbCAN-fam-aln-V14.tar.gz" "${TMP_PATH}/msa.tar.gz" printf "14 %s\n" "$(date "+%s")" > "${TMP_PATH}/version" touch "${TMP_PATH}/download.done" fi From 3a4d61f373d4369423fc9e4c6343071a64f58124 Mon Sep 17 00:00:00 2001 From: LunaJang Date: Wed, 4 Feb 2026 19:09:53 +0900 Subject: [PATCH 3/3] add parameters for extractframes in easy search workflow for 'translation-mode 1' --- src/workflow/EasySearch.cpp | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/workflow/EasySearch.cpp b/src/workflow/EasySearch.cpp index 0c930e073..b37f8713c 100644 --- a/src/workflow/EasySearch.cpp +++ b/src/workflow/EasySearch.cpp @@ -42,7 +42,7 @@ int doeasysearch(int argc, const char **argv, const Command &command, bool linse for (size_t i = 0; i < par.extractorfs.size(); i++){ par.extractorfs[i]->addCategory(MMseqsParameter::COMMAND_EXPERT); } - for (size_t i = 0; i < par.extractframes.size(); i++){ + for (size_t i = 0; i < par.extractframes.size(); i++) { par.extractframes[i]->addCategory(MMseqsParameter::COMMAND_EXPERT); } for (size_t i = 0; i < par.splitsequence.size(); i++) {