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([2600:4040:45a2:7800:6539:6b26:e0f0:4523]) by smtp.gmail.com with ESMTPSA id o140-20020a374192000000b007343fceee5fsm5992750qka.8.2023.03.22.14.44.53 (version=TLS1_3 cipher=TLS_AES_128_GCM_SHA256 bits=128/128); Wed, 22 Mar 2023 14:44:54 -0700 (PDT) Message-ID: Date: Wed, 22 Mar 2023 17:44:52 -0400 MIME-Version: 1.0 Subject: Re: Google Summer of Code 2023 Inquiry To: Ricardo Wurmus , Simon Tournier Cc: guix-devel@gnu.org, Kyle Andrews References: <6d30ee7b-f1f0-9199-fea8-efd434c8611c@terpmail.umd.edu> <86sfeb9zx8.fsf@gmail.com> <87ttycir7r.fsf@elephly.net> From: Spencer Skylar Chan Content-Language: en-US In-Reply-To: <87ttycir7r.fsf@elephly.net> Content-Type: text/plain; charset=UTF-8; format=flowed Content-Transfer-Encoding: 7bit Received-SPF: pass client-ip=2607:f8b0:4864:20::835; envelope-from=schan12@terpmail.umd.edu; helo=mail-qt1-x835.google.com X-Spam_score_int: -16 X-Spam_score: -1.7 X-Spam_bar: - X-Spam_report: (-1.7 / 5.0 requ) BAYES_00=-1.9, DKIM_INVALID=0.1, DKIM_SIGNED=0.1, RCVD_IN_DNSWL_NONE=-0.0001, SPF_HELO_NONE=0.001, SPF_PASS=-0.001 autolearn=no autolearn_force=no X-Spam_action: no action X-BeenThere: guix-devel@gnu.org X-Mailman-Version: 2.1.29 Precedence: list List-Id: "Development of GNU Guix and the GNU System distribution." List-Unsubscribe: , List-Archive: List-Post: X-Migadu-Queue-Id: D636F2795E X-Spam-Score: -8.05 X-Migadu-Spam-Score: -8.05 X-Migadu-Scanner: scn0.migadu.com List-Help: List-Subscribe: , Errors-To: guix-devel-bounces+larch=yhetil.org@gnu.org Sender: guix-devel-bounces+larch=yhetil.org@gnu.org X-Migadu-Country: US X-Migadu-Flow: FLOW_IN X-TUID: NfMpIO4qcCY5 Hi Ricardo, On 3/22/23 14:19, Ricardo Wurmus wrote: > >>> - Translating Snakemake to Guix Workflow Language (GWL) >> >> Ricardo, maybe you would have some suggestions. :-) > > Oh, this looks interesting. Could you please elaborate on the idea? > My idea is to take as input a Snakemake workflow file and eventually output an equivalent GWL workflow file. Currently, Snakemake workflows can be exported to CWL (Common Workflow Language): https://snakemake.readthedocs.io/en/stable/executing/interoperability.html One approach could be to add CWL import/export capabilities to GWL. Then Snakemake/GWL conversion would be a 2 step process, using CWL as an intermediate step: 1. Snakemake -> CWL 2. CWL -> GWL However, CWL is not as expressive as Snakemake. There may be some details that are lost from Snakemake workflows. So a 1-step Snakemake/GWL transpiler could be interesting, as both Snakemake/GWL use a domain-specific language inside a general purpose language (Python/Guile respectively). There may be a possibility to achieve more "accurate" translations between workflows. Is this topic something that could fit into a summer project?