@possumtech/rummy 2.2.0 → 2.3.1

package/audit/sweep/sam-cell-seg/turns/turn_001.md

@@ -1,77 +0,0 @@
-# turn 001
-
-tokens: prompt=2911 cached=157 completion=389 reasoning=0 total=3300 cost=0
-created: 2026-05-02 00:13:32
-
-update: status=145 body=prompt decomposed
-
----
-
-## reasoning (think)
-
-```
-Decomposing the prompt into key unknowns: MobileSAM usage, mask refinement process, CSV handling, CPU execution, and demo file inspection.
-```
-
-## assistant emission
-
-```
-<think>Decomposing the prompt into key unknowns: MobileSAM usage, mask refinement process, CSV handling, CPU execution, and demo file inspection.</think>
-
-<set path="unknown://project/task" summary="task,convert_masks,mobile_sam,polylines,histopathology" visibility="visible">Convert rectangular masks to polylines using MobileSAM on histopathology images. Script: convert_masks.py with args: weights_path, output_path, rgb_path, csv_path. Refine all masks to non-overlapping contiguous polylines, update CSV with new bbox and coords.</set>
-
-<set path="unknown://mobile_sam/repo" summary="mobile_sam,github,distilled_sam,weights" visibility="summarized">MobileSAM repo: https://github.com/ChaoningZhang/MobileSAM. Need setup, CPU usage, predictor API for mask refinement from bbox/polyline inputs.</set>
-
-<set path="unknown://mobile_sam/usage" summary="mobile_sam,api,predictor,bbox,refine,masks,cpu" visibility="summarized">How to load MobileSAM on CPU, generate masks from bbox/coords, refine to polylines, ensure no overlap/contiguous.</set>
-
-<set path="unknown://demo/files" summary="demo,rgb,metadata,csv,masks,bbox,coords" visibility="summarized">Inspect /app/demo_rgb.png and /app/demo_metadata.csv to understand mask formats (rect vs polyline), coord lists, number of cells.</set>
-
-<set path="unknown://script/requirements" summary="script,args,argparse,csv,output,mobile_sam,cpu" visibility="summarized">Python script structure: load image/metadata, iterate masks, refine with MobileSAM, compute new bbox/coords_x/coords_y, save updated CSV.</set>
-
-<update status="145">prompt decomposed</update>
-```
-
-## actions (chronological log entries)
-
-### `log://turn_1/set/unknown%3A/project/task`
-scheme=log action=set attrs={"path":"unknown://project/task","patch":"===================================================================\n--- unknown://project/task\told\t\n+++ unknown://project/task\tnew\t\n@@ -0,0 +1,1 @@\n+Convert rectangular masks to polylines using MobileSAM on histopathology images. Script: convert_masks.py with args: weights_path, output_path, rgb_path, csv_path. Refine all masks to non-overlapping contiguous polylines, update CSV with new bbox and coords.\n\\n","merge":"<<<<<<< SEARCH\n=======\nConvert rectangular masks to polylines using MobileSAM on histopathology images. Script: convert_masks.py with args: weights_path, output_path, rgb_path, csv_path. Refine all masks to non-overlapping contiguous polylines, update CSV with new bbox and coords.\n>>>>>>> REPLACE","beforeTokens":0,"afterTokens":129,"summary":"task,convert_masks,mobile_sam,polylines,histopathology","action":"set"}
-
-```
-Convert rectangular masks to polylines using MobileSAM on histopathology images. Script: convert_masks.py with args: weights_path, output_path, rgb_path, csv_path. Refine all masks to non-overlapping contiguous polylines, update CSV with new bbox and coords.
-```
-
-### `log://turn_1/set/unknown%3A/mobile_sam/repo`
-scheme=log action=set attrs={"path":"unknown://mobile_sam/repo","patch":"===================================================================\n--- unknown://mobile_sam/repo\told\t\n+++ unknown://mobile_sam/repo\tnew\t\n@@ -0,0 +1,1 @@\n+MobileSAM repo: https://github.com/ChaoningZhang/MobileSAM. Need setup, CPU usage, predictor API for mask refinement from bbox/polyline inputs.\n\\n","merge":"<<<<<<< SEARCH\n=======\nMobileSAM repo: https://github.com/ChaoningZhang/MobileSAM. Need setup, CPU usage, predictor API for mask refinement from bbox/polyline inputs.\n>>>>>>> REPLACE","beforeTokens":0,"afterTokens":72,"summary":"mobile_sam,github,distilled_sam,weights","action":"set"}
-
-```
-MobileSAM repo: https://github.com/ChaoningZhang/MobileSAM. Need setup, CPU usage, predictor API for mask refinement from bbox/polyline inputs.
-```
-
-### `log://turn_1/set/unknown%3A/mobile_sam/usage`
-scheme=log action=set attrs={"path":"unknown://mobile_sam/usage","patch":"===================================================================\n--- unknown://mobile_sam/usage\told\t\n+++ unknown://mobile_sam/usage\tnew\t\n@@ -0,0 +1,1 @@\n+How to load MobileSAM on CPU, generate masks from bbox/coords, refine to polylines, ensure no overlap/contiguous.\n\\n","merge":"<<<<<<< SEARCH\n=======\nHow to load MobileSAM on CPU, generate masks from bbox/coords, refine to polylines, ensure no overlap/contiguous.\n>>>>>>> REPLACE","beforeTokens":0,"afterTokens":57,"summary":"mobile_sam,api,predictor,bbox,refine,masks,cpu","action":"set"}
-
-```
-How to load MobileSAM on CPU, generate masks from bbox/coords, refine to polylines, ensure no overlap/contiguous.
-```
-
-### `log://turn_1/set/unknown%3A/demo/files`
-scheme=log action=set attrs={"path":"unknown://demo/files","patch":"===================================================================\n--- unknown://demo/files\told\t\n+++ unknown://demo/files\tnew\t\n@@ -0,0 +1,1 @@\n+Inspect /app/demo_rgb.png and /app/demo_metadata.csv to understand mask formats (rect vs polyline), coord lists, number of cells.\n\\n","merge":"<<<<<<< SEARCH\n=======\nInspect /app/demo_rgb.png and /app/demo_metadata.csv to understand mask formats (rect vs polyline), coord lists, number of cells.\n>>>>>>> REPLACE","beforeTokens":0,"afterTokens":65,"summary":"demo,rgb,metadata,csv,masks,bbox,coords","action":"set"}
-
-```
-Inspect /app/demo_rgb.png and /app/demo_metadata.csv to understand mask formats (rect vs polyline), coord lists, number of cells.
-```
-
-### `log://turn_1/set/unknown%3A/script/requirements`
-scheme=log action=set attrs={"path":"unknown://script/requirements","patch":"===================================================================\n--- unknown://script/requirements\told\t\n+++ unknown://script/requirements\tnew\t\n@@ -0,0 +1,1 @@\n+Python script structure: load image/metadata, iterate masks, refine with MobileSAM, compute new bbox/coords_x/coords_y, save updated CSV.\n\\n","merge":"<<<<<<< SEARCH\n=======\nPython script structure: load image/metadata, iterate masks, refine with MobileSAM, compute new bbox/coords_x/coords_y, save updated CSV.\n>>>>>>> REPLACE","beforeTokens":0,"afterTokens":69,"summary":"script,args,argparse,csv,output,mobile_sam,cpu","action":"set"}
-
-```
-Python script structure: load image/metadata, iterate masks, refine with MobileSAM, compute new bbox/coords_x/coords_y, save updated CSV.
-```
-
-### `log://turn_1/update/prompt_decomposed`
-scheme=log action=update attrs={"status":145,"action":"update"}
-
-```
-prompt decomposed
-```
-

package/audit/sweep/sam-cell-seg/turns/turn_002.md

@@ -1,71 +0,0 @@
-# turn 002
-
-tokens: prompt=4293 cached=1749 completion=169 reasoning=0 total=4462 cost=0
-created: 2026-05-02 00:13:35
-
-update: status=155 body=discovering demo files for distillation
-
----
-
-## reasoning (think)
-
-```
-* Distillation Stage: Need to inspect demo files to understand mask formats (rect vs polyline), coord lists, # cells.
-* Promote /app/demo_rgb.png and /app/demo_metadata.csv to distill unknown://demo/files.
-* Check repo structure first with manifest to plan file ops safely.
-* Then distill MobileSAM repo/usage unknowns via search + targeted gets.
-* Budget ok: small image slice + csv preview fit easily.
-* After gets, distill into known:// entries next turn.
-```
-
-## assistant emission
-
-```
-<think>
-* Distillation Stage: Need to inspect demo files to understand mask formats (rect vs polyline), coord lists, # cells.
-* Promote /app/demo_rgb.png and /app/demo_metadata.csv to distill unknown://demo/files.
-* Check repo structure first with manifest to plan file ops safely.
-* Then distill MobileSAM repo/usage unknowns via search + targeted gets.
-* Budget ok: small image slice + csv preview fit easily.
-* After gets, distill into known:// entries next turn.
-</think>
-
-<get path="app/" manifest/>
-<get path="app/demo_rgb.png" line="1" limit="1"/>
-<get path="app/demo_metadata.csv" preview/>
-<get path="app/demo_metadata.csv" line="-20"/>
-
-<update status="155">discovering demo files for distillation</update>
-```
-
-## actions (chronological log entries)
-
-### `log://turn_2/get/app`
-scheme=log action=get attrs={"path":"app/","action":"get"}
-
-```
-MANIFEST get path="app/": 0 matched (0 tokens)
-
-```
-
-### `log://turn_2/get/app/demo_rgb.png`
-scheme=log action=get attrs={"path":"app/demo_rgb.png","action":"get"}
-
-```
-app/demo_rgb.png not found
-```
-
-### `log://turn_2/get/app/demo_metadata.csv`
-scheme=log action=get attrs={"path":"app/demo_metadata.csv","action":"get"}
-
-```
-app/demo_metadata.csv not found
-```
-
-### `log://turn_2/update/discovering_demo_files_for_distillation`
-scheme=log action=update attrs={"status":155,"action":"update"}
-
-```
-discovering demo files for distillation
-```
-

package/audit/sweep/sam-cell-seg/turns/turn_003.md

@@ -1,92 +0,0 @@
-# turn 003
-
-tokens: prompt=4481 cached=1749 completion=232 reasoning=0 total=4713 cost=0
-created: 2026-05-02 00:13:37
-
-update: status=155 body=discovering demo files, MobileSAM API/docs for distillation
-
----
-
-## reasoning (think)
-
-```
-* In Distillation Stage: Need to discover source entries for unknowns, distill into known://.
-* Priorities: demo files not found in /app/ (turn 2 logs). Need to list repo contents properly.
-* Use <get path="app/" preview/> or <get path="app/**" manifest/> to discover actual demo files.
-* Search MobileSAM repo/docs for CPU setup, predictor API, bbox-to-mask refinement.
-* Will distill MobileSAM info first (repo/usage unknowns), then demo format, then script plan.
-* Budget ample: check manifests first to avoid token overflow.
-* ONE search/turn: start with MobileSAM CPU usage/API.
-* Stage continuation 155 after discoveries.
-```
-
-## assistant emission
-
-```
-<think>
-* In Distillation Stage: Need to discover source entries for unknowns, distill into known://.
-* Priorities: demo files not found in /app/ (turn 2 logs). Need to list repo contents properly.
-* Use <get path="app/" preview/> or <get path="app/**" manifest/> to discover actual demo files.
-* Search MobileSAM repo/docs for CPU setup, predictor API, bbox-to-mask refinement.
-* Will distill MobileSAM info first (repo/usage unknowns), then demo format, then script plan.
-* Budget ample: check manifests first to avoid token overflow.
-* ONE search/turn: start with MobileSAM CPU usage/API.
-* Stage continuation 155 after discoveries.
-</think>
-
-<get path="app/" preview/>
-<get path="app/**" manifest/>
-<search>MobileSAM github ChaoningZhang CPU usage predictor API bbox to mask refine polylines</search>
-<get path="https://github.com/ChaoningZhang/MobileSAM" line="1" limit="50"/>
-
-<update status="155">discovering demo files, MobileSAM API/docs for distillation</update>
-```
-
-## actions (chronological log entries)
-
-### `log://turn_3/get/app`
-scheme=log action=get attrs={"path":"app/","action":"get"}
-
-```
-app/ not found
-```
-
-### `log://turn_3/get/app/**`
-scheme=log action=get attrs={"path":"app/**","action":"get"}
-
-```
-MANIFEST get path="app/**": 0 matched (0 tokens)
-
-```
-
-### `log://turn_3/search/MobileSAM_github_ChaoningZhang_CPU_usage_predictor_API_bbox_to_mask_refine_polyl`
-scheme=log action=search attrs={"query":"MobileSAM github ChaoningZhang CPU usage predictor API bbox to mask refine polylines","action":"search"}
-
-```
-5 of 12 results for "MobileSAM github ChaoningZhang CPU usage predictor API bbox to mask refine polylines" (7 unreachable)
-* https://github.com/ChaoningZhang/MobileSAM/blob/master/README.md — README.md (5427 tokens)
-  from mobile_sam import sam_model_registry, SamAutomaticMaskGenerator, SamPredictor model_type = &quot;vit_t&quot; sam_checkpoint = &quot;./weights/mobile_sam.pt&quot; device = &quot;cuda&quot; if torch.cuda.is_available() else &quot;cpu&quot; mobile_sam = sam_model_registry[model_type](checkpoint=sam_checkpoint) mobile_sam.to(device=device) mobile_sam.eval() predictor = SamPredictor(mobile_sam) predictor.set_image(&lt;your_image&gt;) masks, _, _ = predictor.predict(&lt;input_prompts&gt;) ... from mobile_sam import SamAutomaticMaskGenerator mask_generator = SamAutomaticMaskGenerator(mobile_sam) masks = mask_generator.generate(&lt;your_image&gt;) Download the model weights from the checkpoints. After downloading the model weights, faster SegEvery with MobileSAMv2 can be simply used as follows:
-* https://colab.research.google.com/github/ChaoningZhang/MobileSAM/blob/master/notebooks/predictor_example.ipynb — Google Colab (481 tokens)
-  Sign in
-* https://github.com/ChaoningZhang/MobileSAM/blob/master/app/README.md — README.md (832 tokens)
-  Specifically, we replace the original heavyweight ViT-H encoder (632M) with a much smaller Tiny-ViT (5M). <strong>On a single GPU, MobileSAM runs around 12ms per image: 8ms on the image encoder and 4ms on the mask decoder</strong>.
-* https://github.com/ChaoningZhang/MobileSAM/blob/master/CONTRIBUTING.md — CONTRIBUTING.md (700 tokens)
-  This is the official code for MobileSAM project that makes SAM lightweight for mobile applications and beyond! - ChaoningZhang/MobileSAM
-* https://github.com/ChaoningZhang/MobileSAM/blob/master/LICENSE — LICENSE (5679 tokens)
-  This is the official code for MobileSAM project that makes SAM lightweight for mobile applications and beyond! - ChaoningZhang/MobileSAM
-```
-
-### `log://turn_3/get/https%3A/github.com/ChaoningZhang/MobileSAM`
-scheme=log action=get attrs={"path":"https://github.com/ChaoningZhang/MobileSAM","action":"get"}
-
-```
-https://github.com/ChaoningZhang/MobileSAM not found
-```
-
-### `log://turn_3/update/discovering_demo_files/_MobileSAM_API/docs_for_distillation`
-scheme=log action=update attrs={"status":155,"action":"update"}
-
-```
-discovering demo files, MobileSAM API/docs for distillation
-```
-

package/audit/sweep/sam-cell-seg/turns/turn_004.md

@@ -1,73 +0,0 @@
-# turn 004
-
-tokens: prompt=5253 cached=1749 completion=236 reasoning=0 total=5489 cost=0
-created: 2026-05-02 00:13:53
-
-update: status=155 body=listing files; getting MobileSAM predictor example + app README for API disti…
-
----
-
-## reasoning (think)
-
-```
-* Still in Distillation Stage. Key unknowns: demo/files (need actual files), mobile_sam/usage (need precise API).
-* Demo files not found in /app (turns 2-3). List repo root to discover actual paths.
-* MobileSAM search gave good leads (README 5427 tokens too big). Get predictor_example Colab (481 tokens) for CPU/predictor usage.
-* Also get app/README (832 tokens) for perf/CPU info.
-* Check tokensFree=1.7M, so safe.
-* Plan: <get path="/" preview/> for files; <get path="https://colab...predictor_example.ipynb"/> and app/README.md; then distill mobile_sam/usage.
-* Continue 155.
-```
-
-## assistant emission
-
-```
-<think>
-* Still in Distillation Stage. Key unknowns: demo/files (need actual files), mobile_sam/usage (need precise API).
-* Demo files not found in /app (turns 2-3). List repo root to discover actual paths.
-* MobileSAM search gave good leads (README 5427 tokens too big). Get predictor_example Colab (481 tokens) for CPU/predictor usage.
-* Also get app/README (832 tokens) for perf/CPU info.
-* Check tokensFree=1.7M, so safe.
-* Plan: <get path="/" preview/> for files; <get path="https://colab...predictor_example.ipynb"/> and app/README.md; then distill mobile_sam/usage.
-* Continue 155.
-</think>
-
-<get path="/" preview/>
-
-<get path="https://colab.research.google.com/github/ChaoningZhang/MobileSAM/blob/master/notebooks/predictor_example.ipynb"/>
-
-<get path="https://github.com/ChaoningZhang/MobileSAM/blob/master/app/README.md"/>
-
-<update status="155">listing files; getting MobileSAM predictor example + app README for API distillation</update>
-```
-
-## actions (chronological log entries)
-
-### `log://turn_4/get/_`
-scheme=log action=get attrs={"path":"/","action":"get"}
-
-```
-/ not found
-```
-
-### `log://turn_4/get/https%3A/colab.research.google.com/github/ChaoningZhang/MobileSAM/blob/master/not`
-scheme=log action=get attrs={"path":"https://colab.research.google.com/github/ChaoningZhang/MobileSAM/blob/master/notebooks/predictor_example.ipynb","action":"get"}
-
-```
-https://colab.research.google.com/github/ChaoningZhang/MobileSAM/blob/master/notebooks/predictor_example.ipynb promoted
-```
-
-### `log://turn_4/get/https%3A/github.com/ChaoningZhang/MobileSAM/blob/master/app/README.md`
-scheme=log action=get attrs={"path":"https://github.com/ChaoningZhang/MobileSAM/blob/master/app/README.md","action":"get"}
-
-```
-https://github.com/ChaoningZhang/MobileSAM/blob/master/app/README.md promoted
-```
-
-### `log://turn_4/update/listing_files%3B_getting_MobileSAM_predictor_example_%2B_app_README_for_API_distilla`
-scheme=log action=update attrs={"status":155,"action":"update"}
-
-```
-listing files; getting MobileSAM predictor example + app README for API distillation
-```
-